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Published: 2024-10-17T09:13:36+00:00
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Published: 2024-10-11T09:33:58+00:00
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Published: 2024-10-06T00:00:00+00:00
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W39, 2024
Published: 2024-09-27T00:00:00+00:00
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W37, 2024
Published: 2024-09-13T12:19:47+00:00
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Published: 2024-09-07T00:00:00+00:00
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W34, 2024
Published: 2024-08-21T15:23:33+00:00
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Published: 2024-08-16T00:00:00+00:00
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Published: 2024-07-12T09:35:29+00:00
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W27, 2024
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Finding a material's PURL or Short URL (July 04, 2024)
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Translations within the GTN (July 03, 2024)
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Top level history controls (July 02, 2024)
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History options (July 02, 2024)
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Datasets versus collections (July 02, 2024)
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Dataset snippet (July 02, 2024)
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Dataset colors (July 02, 2024)
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History annotation (July 02, 2024)
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How to un-hide datasets? (July 02, 2024)
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How to un-delete datasets? (July 02, 2024)
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Manipulating multiple history datasets (July 02, 2024)
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How to delete datasets? (July 02, 2024)
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Published: 2024-07-04T16:23:04+00:00
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Published: 2024-05-10T11:23:12+00:00
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Published: 2024-04-17T13:24:50+00:00
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Published: 2024-03-14T14:33:23+00:00
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Published: 2024-02-21T14:08:32+00:00
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Published: 2024-02-06T15:43:02+00:00
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Published: 2024-01-08T11:21:03+00:00
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Published: 2024-01-01T12:00:00+00:00
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W51, 2023
Published: 2023-12-22T00:00:00+00:00
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W50, 2023
Published: 2023-12-14T16:16:41+00:00
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W49, 2023
Published: 2023-12-08T14:46:22+00:00
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W48, 2023
Published: 2023-12-01T12:00:00+00:00
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W47, 2023
Published: 2023-11-21T00:00:00+00:00
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W46, 2023
Published: 2023-11-14T17:16:58+00:00
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W45, 2023
Published: 2023-11-08T09:46:18+00:00
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W44, 2023
Published: 2023-11-02T09:28:11+00:00
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W43, 2023
Published: 2023-10-24T09:11:59+00:00
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W42, 2023
Published: 2023-10-17T12:50:06+00:00
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Published: 2023-10-12T00:00:00+00:00
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Published: 2023-10-08T15:21:27+00:00
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Published: 2023-10-01T12:00:00+00:00
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Published: 2023-09-22T09:44:14+00:00
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W37, 2023
Published: 2023-09-13T09:31:14+00:00
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W36, 2023
Published: 2023-09-04T08:24:00+00:00
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Published: 2023-09-01T12:00:00+00:00
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W34, 2023
Published: 2023-08-25T05:00:35+00:00
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W31, 2023
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Published: 2023-07-20T00:00:00+00:00
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Published: 2023-07-01T12:00:00+00:00
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W25, 2023
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Do the pipelines work with both isolates and direct from raw meat? or only isolate? (June 21, 2023)
-
Can we also use this workflow on Illumina raw reads? (June 21, 2023)
-
Can we use snippy pipeline instead for the phylogenetic analysis? (June 21, 2023)
-
Isn't it awkward to find so many humans sequences there, since we filter for them before? (June 21, 2023)
-
Is there a way to filter on the Kalimari database? (June 21, 2023)
-
From where can I import other genomes? (June 21, 2023)
-
For preprocessing part with host removal: Where do you find the abbreviations for each host species available (e.g. bos is cow, homo is human..)? (June 21, 2023)
-
What does `^.*Gallus|Homo|Bos.*$` mean? (June 21, 2023)
-
After sequencing with MinKNOW software, we get many fastq files, do these files need to be combined into one file before uploading or is it possible to upload them all at once? (June 21, 2023)
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Published: 2023-06-23T16:06:20+00:00
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W24, 2023
Published: 2023-06-16T10:00:11+00:00
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Published: 2023-06-07T16:17:57+00:00
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W22, 2023
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@TanguyGen (June 01, 2023)
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Published: 2023-06-01T12:00:00+00:00
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W21, 2023
Published: 2023-05-23T10:15:15+00:00
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W20, 2023
📰 News
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Recording of Understanding Galaxy history system (May 19, 2023)
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Recording of Quality Control (May 19, 2023)
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Recording of Pre-processing of 10X Single-Cell RNA Datasets (May 19, 2023)
-
Recording of 16S Microbial Analysis with mothur (short) (May 19, 2023)
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Recording of Creating Galaxy tools from Conda Through Deployment (May 18, 2023)
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Recording of Introduction to Genomics and Galaxy (May 18, 2023)
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Recording of Metatranscriptomics analysis using microbiome RNA-seq data (May 17, 2023)
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Recording of Metatranscriptomics analysis using microbiome RNA-seq data (short) (May 17, 2023)
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Recording of Taxonomic Profiling and Visualization of Metagenomic Data (May 16, 2023)
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Recording of Large genome assembly and polishing (May 16, 2023)
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Recording of Reference-based RNA-Seq data analysis (May 15, 2023)
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Published: 2023-05-19T11:33:23+00:00
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Published: 2023-05-12T00:00:00+00:00
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W18, 2023
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Published: 2023-05-03T14:34:02+00:00
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W17, 2023
Published: 2023-04-28T20:05:26+00:00
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W16, 2023
Published: 2023-04-20T00:00:00+00:00
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W15, 2023
📰 News
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-
Customizing the look of Galaxy (April 16, 2023)
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Customizing the look of Galaxy (Manual) (April 16, 2023)
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Deploying a Beacon v1 in Galaxy (April 16, 2023)
-
Server Maintenance: Cleanup, Backup, and Restoration (April 16, 2023)
-
Setting up Celery Workers for Galaxy (April 16, 2023)
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Sentinel 2 biodiversity (April 13, 2023)
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Inferring single cell trajectories with Monocle3 (R) (April 12, 2023)
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Obis marine indicators (April 11, 2023)
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Published: 2023-04-16T09:02:56+00:00
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W13, 2023
Published: 2023-04-01T12:00:00+00:00
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W12, 2023
Published: 2023-03-21T16:27:58+00:00
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W11, 2023
Published: 2023-03-17T11:29:55+00:00
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W10, 2023
📚 Tutorials
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-
kmer counting - meryl - upgraded (March 06, 2023)
-
Trim and filter reads - fastp - upgraded (March 06, 2023)
-
Racon polish with long reads, x4 - upgraded (March 06, 2023)
-
Racon polish with Illumina reads (R1 only), x2 - upgraded (March 06, 2023)
-
Data QC - upgraded (March 06, 2023)
-
Combined workflows for large genome assembly - upgraded (March 06, 2023)
-
Assess genome quality - upgraded (March 06, 2023)
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Assembly with Flye - upgraded (March 06, 2023)
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Assembly polishing - upgraded (March 06, 2023)
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Published: 2023-03-06T16:02:30+00:00
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W09, 2023
Published: 2023-03-01T12:00:00+00:00
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W08, 2023
Published: 2023-02-23T15:32:00+00:00
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W07, 2023
Published: 2023-02-14T08:03:56+00:00
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Published: 2023-02-08T00:00:00+00:00
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W05, 2023
Published: 2023-02-03T12:02:32+00:00
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W04, 2023
Published: 2023-01-26T15:01:44+00:00
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W03, 2023
Published: 2023-01-20T10:58:39+00:00
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W02, 2023
Published: 2023-01-10T00:00:00+00:00
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W01, 2023
Published: 2023-01-04T09:55:12+00:00
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W00, 2023
Published: 2023-01-01T12:00:00+00:00
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W49, 2022
Published: 2022-12-05T10:09:59+00:00
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W48, 2022
Published: 2022-12-01T12:00:00+00:00
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W47, 2022
Published: 2022-11-21T16:45:21+00:00
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W46, 2022
Published: 2022-11-18T15:34:02+00:00
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W44, 2022
Published: 2022-11-03T15:18:56+00:00
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W43, 2022
Published: 2022-10-28T12:54:51+00:00
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W42, 2022
Published: 2022-10-21T12:12:15+00:00
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W40, 2022
Published: 2022-10-05T09:28:06+00:00
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W39, 2022
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Published: 2022-10-01T12:00:00+00:00
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W38, 2022
📚 Tutorials
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Long non-coding RNAs (lncRNAs) annotation with FEELnc (September 23, 2022)
-
Assessment and feedback in training and teachings (September 23, 2022)
-
Training techniques to enhance learner participation and engagement (September 23, 2022)
-
Motivation and Demotivation (September 23, 2022)
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Teaching experiences (September 23, 2022)
-
Principles of learning and how they apply to training and teaching (September 23, 2022)
-
Design and plan session, course, materials (September 23, 2022)
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Deploying Tailscale/Headscale for private mesh networking (September 21, 2022)
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Deploying Wireguard for private mesh networking (September 21, 2022)
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Published: 2022-09-23T14:33:06+00:00
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W37, 2022
Published: 2022-09-12T12:57:28+00:00
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W36, 2022
Published: 2022-09-11T00:00:00+00:00
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Published: 2022-09-01T12:58:15+00:00
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Published: 2022-08-26T14:11:00+00:00
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Published: 2022-08-01T12:00:00+00:00
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W29, 2022
Published: 2022-07-22T14:24:02+00:00
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W28, 2022
Published: 2022-07-16T17:42:54+00:00
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W27, 2022
Published: 2022-07-07T13:46:01+00:00
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W26, 2022
Published: 2022-07-01T12:00:00+00:00
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W25, 2022
Published: 2022-06-23T14:06:47+00:00
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W24, 2022
Published: 2022-06-16T01:07:03+00:00
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W23, 2022
❓ Faqs
-
How many mules? (June 07, 2022)
-
Customising the welcome page (June 07, 2022)
-
Is YAML sensitive to True/true/False/false (June 07, 2022)
-
How do I know what I can do with a role? What variables are available? (June 07, 2022)
-
What is the difference between the roles with `role:` prefix and without? (June 07, 2022)
-
Error: "skipping: no hosts matched" (June 07, 2022)
-
What if you forget `--diff`? (June 07, 2022)
-
Define once, reference many times (June 07, 2022)
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Variable connection (June 07, 2022)
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Published: 2022-06-07T12:09:49+00:00
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W22, 2022
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Published: 2022-06-02T13:08:39+00:00
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W20, 2022
Published: 2022-05-20T00:00:00+00:00
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W19, 2022
Published: 2022-05-12T13:33:35+00:00
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W18, 2022
Published: 2022-05-06T11:00:00+00:00
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W17, 2022
📚 Tutorials
-
Python - Functions (April 25, 2022)
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Python - Subprocess (April 25, 2022)
-
Python - Basic Types & Type Conversion (April 25, 2022)
-
Python - Flow Control (April 25, 2022)
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Python - Argparse (April 25, 2022)
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Python - Lists & Strings & Dictionaries (April 25, 2022)
-
Python - Loops (April 25, 2022)
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Python - Introductory Graduation (April 25, 2022)
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Python - Globbing (April 25, 2022)
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Python - Math (April 25, 2022)
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Python - Try & Except (April 25, 2022)
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Python - Files & CSV (April 25, 2022)
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Published: 2022-05-01T12:00:00+00:00
Tags:
W16, 2022
❓ Faqs
-
Tool doesn't recognize input datasets (April 23, 2022)
-
Understanding 'canceled by admin' or cluster failure error messages (April 23, 2022)
-
Understanding ValueError error messages (April 22, 2022)
-
Understanding walltime error messages (April 22, 2022)
-
Understanding 'exceeds memory allocation' error messages (April 22, 2022)
-
Understanding input error messages (April 22, 2022)
-
Mismatched Chromosome identifiers and how to avoid them (April 22, 2022)
-
Ways to use Galaxy (April 22, 2022)
-
Working with very large fastq datasets (April 22, 2022)
-
Working with very large fasta datasets (April 22, 2022)
-
Understanding Datatypes (April 22, 2022)
-
Working with GFF GFT GTF2 GFF3 reference annotation (April 22, 2022)
-
Finding BAM dataset identifiers (April 22, 2022)
-
Troubleshooting Custom Genome fasta (April 22, 2022)
-
Sorting Reference Genome (April 19, 2022)
-
How to hide datasets? (April 19, 2022)
-
Where is the tool help? (April 18, 2022)
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Published: 2022-04-23T21:57:16+00:00
Tags:
W15, 2022
📰 News
❓ Faqs
-
How to use Custom Reference Genomes? (April 17, 2022)
-
Directly obtaining UCSC sourced *genome* identifiers (April 17, 2022)
-
How do I create an account on a public Galaxy instance? (April 15, 2022)
-
Finding and working with "Histories shared with me" (April 15, 2022)
-
Best practices for loading fastq data into Galaxy (April 15, 2022)
-
Purging datasets (April 14, 2022)
-
Extended Help for Differential Expression Analysis Tools (April 14, 2022)
-
NCBI SRA sourced fastq data (April 14, 2022)
-
How do `fastq.gz` datasets relate to the `.fastqsanger` datatype metadata assignment? (April 14, 2022)
-
Data retrieval with “NCBI SRA Tools” (fastq-dump) (April 14, 2022)
-
Using compressed fastq data as tool inputs (April 14, 2022)
-
Does your account usage quota seem incorrect? (April 14, 2022)
-
How to find and correct tool errors related to Metadata? (April 14, 2022)
-
How to format fastq data for tools that require .fastqsanger format? (April 13, 2022)
-
Identifying and formatting Tabular Datasets (April 13, 2022)
-
Incomplete Dataset Download (April 13, 2022)
-
How can I reduce quota usage while still retaining prior work (data, tools, methods)? (April 13, 2022)
-
Sorting Tools (April 13, 2022)
-
How can I upload data using EBI-SRA? (April 13, 2022)
-
How can I load data? (April 13, 2022)
-
Datasets not downloading at all (April 13, 2022)
-
Downloading datasets using command line (April 13, 2022)
-
Unsharing unwanted histories (April 13, 2022)
-
Find all Histories and purge (aka permanently delete) (April 12, 2022)
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Published: 2022-04-17T20:19:58+00:00
Tags:
W14, 2022
Published: 2022-04-06T17:18:13+00:00
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W13, 2022
Published: 2022-04-02T09:06:29+00:00
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W11, 2022
Published: 2022-03-17T11:01:17+00:00
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W10, 2022
🖼️ Slides
🎥 Recordings
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Published: 2022-03-13T12:32:32+00:00
Tags:
W09, 2022
📚 Tutorials
🎥 Recordings
❓ Faqs
-
Why do we have a variant mapping file when it is not being used in the workflow? (March 03, 2022)
-
How many search engines can you use in SearchGUI? (March 03, 2022)
-
What kind of variants are seen in the output? (March 03, 2022)
-
The workflows contain several Query tabular for text manipulation, is there a tutorial for that? (March 03, 2022)
-
Can I use these workflows on datasets generated from our laboratory? (March 03, 2022)
-
Example histories for the proteogenomics tutorials (March 03, 2022)
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In the MVP platform, is it possible to view the genomic location of all the peptides? (March 03, 2022)
-
Why do we change the chromosome names in the Ensembl GTF to match the UCSC genome reference? (March 03, 2022)
-
Is it possible to replace the existing alignment tools such as HISAT and Freebayes with other tools? (March 03, 2022)
-
Downloading the files from the NCBI server fails or takes too long. (March 02, 2022)
-
The UMAP Plots errors out sometimes? (March 02, 2022)
-
UCSC import: what should my file look like? (March 02, 2022)
-
Viewing tool logs (`stdout` and `stderr`) (March 02, 2022)
-
Organizing the tool panel (March 02, 2022)
-
Do I have to run the tools in the order of the tutorial? (March 02, 2022)
-
Does MaxQuant in Galaxy support TMT, iTRAQ, etc.? (March 02, 2022)
-
Is it possible to subsample some samples if you have more reads? (March 02, 2022)
-
MSStats: what does ‘compare groups = yes’ mean? And the comparison matrix to define the contrast between the 2 groups? (March 02, 2022)
-
What is a SNP? (March 02, 2022)
-
How many proteins can be identified and quantified in shotgun proteomics? (March 02, 2022)
-
My snippy is running for a very long time. Is this normal? (March 02, 2022)
-
Additional resources to learn more about proteomic data analysis (March 02, 2022)
-
Are Barcodes always on R1 and Sequence data on R2? (March 02, 2022)
-
Why does the query `SRR11772204 OR SRR11597145 OR SRR11667145` in the Run Selector not return any results? (March 02, 2022)
-
For the “quantitation method” what is the default if I just leave it as “None”? Label free? (March 02, 2022)
-
Can we polish the assembly with long reads too? (March 02, 2022)
-
Running more than one round of Pilon polishing (March 02, 2022)
-
When I get a warning for base per sequence content, what should I do? (March 02, 2022)
-
Does MaxQuant give as output possibility the PSMs and PEPs? (March 02, 2022)
-
What does it mean to normalize the LFQ intensities? (March 02, 2022)
-
MultiQC error for your FastQC reports? (March 02, 2022)
-
If you use a mqpar file, can you include modifications that are not in the Galaxy version? For instance, propionamide (Cys alkylation by acrylamide). (March 02, 2022)
-
Do you need to merge the databases? Because you can select multiple fasta files in MaxQuant. (March 02, 2022)
-
When can you use (or cannot use) Match between runs in MaxQuant? (March 02, 2022)
-
JBrowse is taking a long time to complete? (March 02, 2022)
-
The input for a tool is not listed in the dropdown (March 02, 2022)
-
Most tools seem to have options for assembly using long and short reads, what are the pros and cons of the different tools? (March 02, 2022)
-
Changing the heatmap colours (March 02, 2022)
-
What is Gene Ontology (GO)? (March 02, 2022)
-
Where can I read more about Quality Control of data? (March 02, 2022)
-
What is the principle of an enrichment analysis? (March 02, 2022)
-
FASTQ files: `fastq` vs `fastqsanger` vs .. (March 02, 2022)
-
Compressed FASTQ files, (`*.gz`) (March 02, 2022)
-
Do we need a contaminant FASTA for MQ in galaxy? (March 02, 2022)
-
The Build tissue-specific expression dataset tool (step one) exits with an error code. (March 02, 2022)
-
What is the advantage of breaking down protein to peptides before mass spec? (March 02, 2022)
-
In bowtie 2 parameters, in place of 1000 for other experiments, should we mention the median fragment length observed in our library? (March 02, 2022)
-
Why does my assembly graph in Bandage look different to the one pictured in the tutorial? (March 02, 2022)
-
AnnData Import/ AnnData Manipulate not working? (March 02, 2022)
-
Is it possible to use alternative tools to those proposed in the tutorial? (March 02, 2022)
-
Automatically trim adapters (without providing custom sequences) (March 02, 2022)
-
It says I already have an account when registering for ecology.usegalaxy.eu (March 02, 2022)
-
How to read a Diff (March 01, 2022)
-
Using tutorial mode (March 01, 2022)
-
Can EncyclopeDIA be run on a DIA-MS dataset without a spectral library? (February 28, 2022)
-
Why don't we perform the V-Search dereplication step of ASaiM for metatrascriptomic data? (February 28, 2022)
-
Changing the tool version (February 28, 2022)
-
Can this ASaiM workflow be used for single-end data? (February 28, 2022)
-
When I try to run a Selenium test, I get an error (February 28, 2022)
-
Is the ToolFactory a complete replacement for manual tool building? (February 28, 2022)
-
On the Scanpy PlotEmbed step, my object doesn’t have Il2ra or Cd8b1 or Cd8a etc. (February 28, 2022)
-
On Scanpy PlotEmbed, the tool is failing (February 28, 2022)
-
Only one Planemo test runs at a time. Why doesn't the server allow more than one at once? (February 28, 2022)
-
I cannot run client tests because yarn is not installed. (February 28, 2022)
-
Can we use the ASaiM-MT workflow on multiple input files at the same time? (February 28, 2022)
-
Why do I need that big (~5GB!) complicated Docker thing - can I just install the ToolFactory into our local galaxy server from the toolshed? (February 28, 2022)
-
First job I submitted remains grey or running for a long time - is it broken? (February 28, 2022)
-
Where can I get planemo? (February 28, 2022)
-
What file/data formats are defined for I/O in Galaxy? (February 28, 2022)
-
My Scanpy FindMarkers step is giving me an empty table (February 28, 2022)
-
Why do we use FASTQ interlacer and not the FASTQ joiner? (February 28, 2022)
-
`docker-compose up` fails with error `/usr/bin/start.sh: line 133: /galaxy/.venv/bin/uwsgi: No such file or directory` (February 28, 2022)
-
My Rscript tool generates a strange R error on STDOUT about an invalid operation on a closure called 'args' ? (February 28, 2022)
-
I get a different number of transcripts with a significant change in gene expression between the G1E and megakaryocyte cellular states. Why? (February 28, 2022)
-
I want to use a collection for outputs but it always passes the test even when the script fails. Why? (February 28, 2022)
-
The folder `recipes/belerophon/` and the file `meta.yaml` already exist in bioconda? (February 28, 2022)
-
Why is Alevin is not working? (February 28, 2022)
-
What advantages does a Chromatogram Library have over a DDA-generated library or predicted spectral library? (February 28, 2022)
-
If a Tool is Missing (February 28, 2022)
-
Are these data free to use and download? (February 28, 2022)
-
Contacting Galaxy Administrators (February 28, 2022)
-
Where do I get more support? (February 28, 2022)
-
What should I do special if on usegalaxy.be? (February 28, 2022)
-
Can I use alternative tools for the Quantification step? (February 28, 2022)
-
Why don't the aligned read files have quality scores? (February 28, 2022)
-
When will aligned read objects be available for other data types? (February 28, 2022)
-
Where can I find the full listing and description of the columns in each metadata table? (February 28, 2022)
-
Where can I find example queries for use in the cloud and elsewhere? (February 28, 2022)
-
Do you have resources to help me get started working in the cloud? (February 28, 2022)
-
What information should I include when reporting a problem? (February 28, 2022)
-
My jobs aren't running! (February 28, 2022)
🛠️ Workflows
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-
@tduigou (March 01, 2022)
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@sylviamahara (March 01, 2022)
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@plushz (March 01, 2022)
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@msozzoni (March 01, 2022)
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@Melkeb (March 01, 2022)
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@Marie59 (March 01, 2022)
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@kenza12 (March 01, 2022)
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@jfaulon (March 01, 2022)
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@jbmihoub (March 01, 2022)
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@ioanagry (March 01, 2022)
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@guillaume-gricourt (March 01, 2022)
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@garimavs (March 01, 2022)
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@GaloGS (March 01, 2022)
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@dpelletier (March 01, 2022)
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@cstritt (March 01, 2022)
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Published: 2022-03-03T12:15:42+00:00
Tags:
W07, 2022
Published: 2022-02-18T23:27:51+00:00
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W06, 2022
Published: 2022-02-11T12:34:18+00:00
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W05, 2022
Published: 2022-02-01T12:00:00+00:00
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W04, 2022
Published: 2022-01-28T00:00:00+00:00
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W03, 2022
Published: 2022-01-19T00:00:00+00:00
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W02, 2022
Published: 2022-01-14T08:54:57+00:00
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W00, 2022
Published: 2022-01-01T12:00:00+00:00
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W50, 2021
Published: 2021-12-14T20:39:51+00:00
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W48, 2021
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Published: 2021-12-01T15:54:59+00:00
Tags:
W47, 2021
📰 News
❓ Faqs
-
I’m using the same training data, tools, and parameters as the tutorial, but I get a different number of transcripts with a significant change in gene expression between the G1E and megakaryocyte cellular states. Why? (November 22, 2021)
-
In 'infer experiments' I get unequal numbers, but in the IGV it looks like it is unstranded. What does this mean? (November 22, 2021)
-
RNAstar: Why do we set 36 for 'Length of the genomic sequence around annotated junctions'? (November 22, 2021)
-
Is it possible to visualize the RNA STAR bam file using the JBrowse tool? (November 22, 2021)
-
When is the "infer experiment" tool used in practice? (November 22, 2021)
-
Could I use a different p-adj value for filtering differentially expressed genes? (November 22, 2021)
-
The tutorial uses the normalised count table for visualisation. What about using VST normalised counts or rlog normalised counts? (November 22, 2021)
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Published: 2021-11-23T00:00:00+00:00
Tags:
W46, 2021
📚 Tutorials
❓ Faqs
-
What other methods are available to study the functional state of the microbiome within Galaxy? (November 17, 2021)
-
I have a really large search database, what search strategies do you recommend for searching my mass spectrometry dataset? (November 17, 2021)
-
Which search algorithms are recommended for searching the metaproteomics data? (November 17, 2021)
-
Can I use these workflows on datasets generated from our laboratory? (November 17, 2021)
-
Why do we do dimension reduction and then clustering? Why not just cluster on the actual data? (November 17, 2021)
-
What software tools are available to determine taxonomic composition from mass spectrometry data? (November 17, 2021)
-
I have FASTQ files from metagenomics or metatranscriptomics datasets? How can I convert them into a protein FASTA file for metaproteomics searches? (November 17, 2021)
-
How does one convert RAW files to MGF peak lists within Galaxy? (November 17, 2021)
-
How does one compare metaproteomics measurements from two experimental conditions? (November 17, 2021)
-
Are UMIs not actually unique? (November 17, 2021)
-
I got slightly different numbers than were in the tutorial (November 17, 2021)
-
My jobs are not running / I cannot see the history overview menu (November 17, 2021)
-
My Galaxy looks different than in the tutorial/video (November 17, 2021)
-
UCSC - I fetched data from a remote website but now I’m logged out of Galaxy and my data is gone? (November 17, 2021)
-
I can’t find the “Analyze Data” button (November 17, 2021)
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Published: 2021-11-18T12:06:25+00:00
Tags:
W45, 2021
Published: 2021-11-14T18:06:10+00:00
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W44, 2021
Published: 2021-11-01T12:00:00+00:00
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W43, 2021
Published: 2021-10-25T13:43:54+00:00
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W42, 2021
Published: 2021-10-20T18:30:06+00:00
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W41, 2021
Published: 2021-10-15T07:01:26+00:00
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W40, 2021
Published: 2021-10-07T15:52:06+00:00
Tags:
W39, 2021
📰 News
📚 Tutorials
❓ Faqs
🧑🏫 Contributors
-
@themudo (October 01, 2021)
-
@Shorla (October 01, 2021)
-
@saritadc (October 01, 2021)
-
@saramorsy (October 01, 2021)
-
@sandygudie (October 01, 2021)
-
@robertmand (October 01, 2021)
-
@rahmot (October 01, 2021)
-
@otatadeabigail (October 01, 2021)
-
@NUKnightLab (October 01, 2021)
-
@myles-bilong (October 01, 2021)
-
@millen2223 (October 01, 2021)
-
@mariipia10 (October 01, 2021)
-
@lgallegovillar (October 01, 2021)
-
@lamouresparus (October 01, 2021)
-
@kenjifujihara (October 01, 2021)
-
@jrr-cpt (October 01, 2021)
-
@gatwirival (October 01, 2021)
-
@Ezichi-Fav (October 01, 2021)
-
@dirowa (October 01, 2021)
-
@Chinonyemildred (October 01, 2021)
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@bfranicevic (October 01, 2021)
-
@ajadi-abiola (October 01, 2021)
-
@AfiDede (October 01, 2021)
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Published: 2021-10-01T12:00:00+00:00
Tags:
W38, 2021
Published: 2021-09-24T00:00:00+00:00
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W35, 2021
📚 Tutorials
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🧑🏫 Contributors
🏢 Organisations
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Published: 2021-09-02T10:16:57+00:00
Tags:
W34, 2021
Published: 2021-08-25T11:53:53+00:00
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W32, 2021
📚 Tutorials
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Published: 2021-08-13T21:11:55+00:00
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W31, 2021
Published: 2021-08-04T19:00:46+00:00
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W30, 2021
Published: 2021-08-01T12:00:00+00:00
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W29, 2021
Published: 2021-07-25T00:00:00+00:00
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W26, 2021
Published: 2021-06-30T06:20:05+00:00
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W25, 2021
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Published: 2021-06-26T00:00:00+00:00
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W24, 2021
Published: 2021-06-18T13:52:44+00:00
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Published: 2021-06-11T10:08:00+00:00
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W22, 2021
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Published: 2021-06-04T16:47:17+00:00
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W21, 2021
Published: 2021-05-26T12:43:45+00:00
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Published: 2021-05-21T15:04:43+00:00
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W19, 2021
Published: 2021-05-15T00:00:00+00:00
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W18, 2021
Published: 2021-05-06T10:06:35+00:00
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W17, 2021
Published: 2021-05-01T12:00:00+00:00
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W16, 2021
Published: 2021-04-20T00:00:00+00:00
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W15, 2021
Published: 2021-04-16T10:55:25+00:00
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Published: 2021-04-10T00:00:00+00:00
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W13, 2021
Published: 2021-03-30T00:00:00+00:00
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W12, 2021
📰 News
📚 Tutorials
❓ Faqs
-
Nanopore sequencing (March 24, 2021)
-
Illumina MiSeq sequencing (March 24, 2021)
-
Running a workflow (March 24, 2021)
-
Renaming workflow outputs (March 24, 2021)
-
Setting parameters at run-time (March 24, 2021)
-
Importing a workflow (March 24, 2021)
-
Hiding intermediate steps (March 24, 2021)
-
Extracting a workflow from your history (March 24, 2021)
-
Opening the workflow editor (March 24, 2021)
-
Creating a new workflow (March 24, 2021)
-
Add Mapped reads track to IGV from Galaxy (March 24, 2021)
-
Add genome and annotations to IGV from Galaxy (March 24, 2021)
-
How can I create a tutorial skeleton from a Galaxy workflow? (March 24, 2021)
-
Select multiple datasets (March 24, 2021)
-
Selecting a dataset collection as input (March 24, 2021)
-
Re-running a tool (March 24, 2021)
-
Getting your API key (March 24, 2021)
-
Where can I read more about this analysis? (March 24, 2021)
-
How do I use this material? (March 24, 2021)
-
Where can I run the hands-on tutorials? (March 24, 2021)
-
Where do I start? (March 24, 2021)
-
How can I get help? (March 24, 2021)
-
Stop RStudio (March 24, 2021)
-
Launch RStudio (March 24, 2021)
-
Launch JupyterLab (March 24, 2021)
-
Where do I start? (March 24, 2021)
-
How do I get help? (March 24, 2021)
-
What Galaxy instance should I use for my training? (March 24, 2021)
-
What are the best practices for teaching with Galaxy? (March 24, 2021)
-
Install tools via the Admin UI (March 24, 2021)
-
Which icons are available to use in my tutorial? (March 24, 2021)
-
Searching your history (March 24, 2021)
-
Renaming a history (March 24, 2021)
-
Creating a new history (March 24, 2021)
-
Copy a dataset between histories (March 24, 2021)
-
What are the tutorials for? (March 24, 2021)
-
Sustainability of the training-material and metadata (March 24, 2021)
-
How is the content licensed? (March 24, 2021)
-
How can I cite the GTN? (March 24, 2021)
-
What audiences are the tutorials for? (March 24, 2021)
-
How can I advertise the training materials on my posters? (March 24, 2021)
-
What is this website? (March 24, 2021)
-
What is Galaxy? (March 24, 2021)
-
Are there any upcoming events focused on Galaxy Training? (March 24, 2021)
-
Using the Window Manager to view multiple datasets (March 24, 2021)
-
Renaming a dataset (March 24, 2021)
-
Importing via links (March 24, 2021)
-
Importing data from a data library (March 24, 2021)
-
Detecting the datatype (file format) (March 24, 2021)
-
Creating a new file (March 24, 2021)
-
Converting the file format (March 24, 2021)
-
Changing database/build (dbkey) (March 24, 2021)
-
Changing the datatype (March 24, 2021)
-
Adding a tag (March 24, 2021)
-
How can I create new content without dealing with git? (March 24, 2021)
-
How can I test an Interactive Tour? (March 24, 2021)
-
How can I report mistakes or errors? (March 24, 2021)
-
What can I do to help the project? (March 24, 2021)
-
How can I give feedback? (March 24, 2021)
-
How can I fix mistakes or expand an existing tutorial using the GitHub interface? (March 24, 2021)
-
How can I contribute in "advanced" mode? (March 24, 2021)
-
How can I get started with contributing? (March 24, 2021)
-
Thanks! (March 24, 2021)
-
Renaming a collection (March 24, 2021)
-
Creating a paired collection (March 24, 2021)
-
Creating a dataset collection (March 24, 2021)
-
Adding a tag to a collection (March 24, 2021)
-
Running Ansible on your remote machine (March 24, 2021)
-
Results may vary (March 24, 2021)
-
Adding a custom database/build (dbkey) (March 24, 2021)
-
Operating system compatibility (March 24, 2021)
-
How can I adapt this tutorial to my own data? (March 24, 2021)
-
Sharing your History (March 24, 2021)
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Published: 2021-03-24T18:30:46+00:00
Tags:
W11, 2021
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Published: 2021-03-18T00:00:00+00:00
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W10, 2021
Published: 2021-03-08T00:00:00+00:00
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W09, 2021
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Published: 2021-03-03T13:21:27+00:00
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W08, 2021
Published: 2021-02-24T16:21:43+00:00
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W07, 2021
📚 Tutorials
🎥 Recordings
-
Recording of R basics in Galaxy (February 15, 2021)
-
Recording of Advanced R in Galaxy (February 15, 2021)
-
Recording of Rule Based Uploader (February 15, 2021)
-
Recording of Rule Based Uploader: Advanced (February 15, 2021)
-
Recording of Introduction to Machine Learning using R (February 15, 2021)
-
Recording of RNA Seq Counts to Viz in R (February 15, 2021)
-
Recording of Visualization of RNA-Seq results with Volcano Plot in R (February 15, 2021)
-
Recording of Inferring single cell trajectories with Scanpy (Python) (February 15, 2021)
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Recording of Running the GTN website online using GitPod (February 15, 2021)
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Recording of ToolFactory: Generating Tools From More Complex Scripts (February 15, 2021)
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Recording of Creating Galaxy tools from Conda Through Deployment (February 15, 2021)
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Recording of Use Apptainer containers for running Galaxy jobs (February 15, 2021)
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Recording of Training Infrastructure as a Service (TIaaS) (February 15, 2021)
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Recording of Upgrading Galaxy (February 15, 2021)
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Recording of Mapping Jobs to Destinations using TPV (February 15, 2021)
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Recording of Introduction to Transcriptomics (February 15, 2021)
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Recording of An introduction to scRNA-seq data analysis (February 15, 2021)
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Recording of Creating Slides (February 15, 2021)
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Recording of ToolFactory: Generating Tools From Simple Scripts (February 15, 2021)
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Recording of Introduction to Microbiome Analysis (February 15, 2021)
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Recording of Connecting Galaxy to a compute cluster (February 15, 2021)
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Recording of Connecting Galaxy to a compute cluster (February 15, 2021)
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Recording of Galaxy Tool Management with Ephemeris (February 15, 2021)
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Recording of Galaxy Interactive Tools (February 15, 2021)
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Recording of Galaxy Monitoring with Telegraf and Grafana (February 15, 2021)
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Recording of Galaxy Monitoring with Telegraf and Grafana (February 15, 2021)
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Recording of Data Libraries (February 15, 2021)
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Recording of Storage Management (February 15, 2021)
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Recording of User, Role, Group, Quota, and Authentication managment (February 15, 2021)
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Recording of Galaxy Installation with Ansible (February 15, 2021)
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Recording of Running Jobs on Remote Resources with Pulsar (February 15, 2021)
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Recording of Running Jobs on Remote Resources with Pulsar (February 15, 2021)
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Recording of Ansible (February 15, 2021)
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Recording of Ansible (February 15, 2021)
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Recording of Galaxy Monitoring with gxadmin (February 15, 2021)
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Recording of Reference Data with CVMFS (February 15, 2021)
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Recording of Reference Data with CVMFS (February 15, 2021)
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Recording of Introduction to proteomics, protein identification, quantification and statistical modelling (February 15, 2021)
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Recording of Quality Control (February 15, 2021)
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Recording of Quality Control (February 15, 2021)
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Recording of Mapping (February 15, 2021)
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Recording of Mapping (February 15, 2021)
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Recording of Refining Genome Annotations with Apollo (February 15, 2021)
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Recording of Refining Genome Annotations with Apollo (prokaryotes) (February 15, 2021)
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Recording of Automating Galaxy workflows using the command line (February 15, 2021)
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Recording of From NCBI's Sequence Read Archive (SRA) to Galaxy: SARS-CoV-2 variant analysis (February 15, 2021)
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Recording of M. tuberculosis Variant Analysis (February 15, 2021)
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Recording of Galaxy Basics for everyone (February 15, 2021)
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Recording of NGS data logistics (February 15, 2021)
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Recording of Introduction to Genomics and Galaxy (February 15, 2021)
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Recording of Deep Learning (Part 3) - Convolutional neural networks (CNN) (February 15, 2021)
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Recording of Classification in Machine Learning (February 15, 2021)
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Recording of Deep Learning (Part 2) - Recurrent neural networks (RNN) (February 15, 2021)
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Recording of Deep Learning (Part 1) - Feedforward neural networks (FNN) (February 15, 2021)
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Recording of Regression in Machine Learning (February 15, 2021)
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Recording of De novo transcriptome reconstruction with RNA-Seq (February 15, 2021)
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Recording of Visualization of RNA-Seq results with Volcano Plot (February 15, 2021)
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Recording of Whole transcriptome analysis of Arabidopsis thaliana (February 15, 2021)
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Recording of Combining single cell datasets after pre-processing (February 15, 2021)
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Recording of Filter, plot and explore single-cell RNA-seq data with Scanpy (February 15, 2021)
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Recording of Generating a single cell matrix using Alevin (February 15, 2021)
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Recording of Analysis of plant scRNA-Seq Data with Scanpy (February 15, 2021)
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Recording of Introduction to ATAC-Seq data analysis (February 15, 2021)
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Recording of ATAC-Seq data analysis (February 15, 2021)
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Recording of Functionally Assembled Terrestrial Ecosystem Simulator (FATES) (February 15, 2021)
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Recording of Functionally Assembled Terrestrial Ecosystem Simulator (FATES) (February 15, 2021)
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Recording of Circos (February 15, 2021)
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Recording of Visualisation with Circos (February 15, 2021)
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Recording of Creating a new tutorial (February 15, 2021)
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Recording of High Throughput Molecular Dynamics and Analysis (February 15, 2021)
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Recording of 16S Microbial Analysis with mothur (short) (February 15, 2021)
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Recording of Metatranscriptomics analysis using microbiome RNA-seq data (February 15, 2021)
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Recording of Antibiotic resistance detection (February 15, 2021)
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Recording of Metatranscriptomics analysis using microbiome RNA-seq data (short) (February 15, 2021)
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Recording of Chloroplast genome assembly (February 15, 2021)
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Recording of Unicycler assembly of SARS-CoV-2 genome with preprocessing to remove human genome reads (February 15, 2021)
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Recording of Annotating a protein list identified by LC-MS/MS experiments (February 15, 2021)
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Recording of Proteogenomics 1: Database Creation (February 15, 2021)
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Recording of Proteogenomics 2: Database Search (February 15, 2021)
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Recording of MaxQuant and MSstats for the analysis of label-free data (February 15, 2021)
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Recording of Proteogenomics 3: Novel peptide analysis (February 15, 2021)
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Recording of Metaproteomics tutorial (February 15, 2021)
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Recording of Reference-based RNA-Seq data analysis (February 15, 2021)
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Recording of An Introduction to Genome Assembly (February 15, 2021)
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Recording of Genome annotation with Prokka (February 15, 2021)
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Recording of Genome annotation with Prokka (February 15, 2021)
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📚 Tutorials
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Galaxy on the Cloud (January 31, 2019)
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Empathy (January 31, 2019)
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Galaxy Monitoring with Telegraf and Grafana (January 31, 2019)
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Server Maintenance: Cleanup, Backup, and Restoration (January 31, 2019)
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Storage Management (January 28, 2019)
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Reference Genomes in Galaxy (January 28, 2019)
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uWSGI (January 28, 2019)
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Galaxy Troubleshooting (January 28, 2019)
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Gearing towards production (January 28, 2019)
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External Authentication (January 28, 2019)
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Controlling Galaxy with systemd or Supervisor (January 28, 2019)
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Galactic Database (January 28, 2019)
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@willemdek11 (September 01, 2018)
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