Pavankumar Videm

Affiliations

Contributions

The following list includes only slides and tutorials where the individual has been added to the contributor list. This may not include the sum total of their contributions to the training materials (e.g. GTN css or design, tutorial datasets, workflow development, etc.) unless described by a news post.

GitHub Activity

• github Pull Requests
• github Commits
• github Issues Reported

Editorial Roles

This contributor has taken on additional responsibilities as an editor for the following topics. They are responsible for ensuring that the content is up to date, accurate, and follows GTN best practices.

• Single Cell
• Applying single-cell RNA-seq analysis
• Introduction to Galaxy and Single Cell RNA Sequence analysis

Tutorials

• Single Cell / Converting between common single cell data formats ⚙️
• Single Cell / Analysis of plant scRNA-Seq Data with Scanpy
• Single Cell / Converting NCBI Data to the AnnData Format 📝 ⚙️
• Single Cell / Inferring single cell trajectories with Scanpy 📝
• Single Cell / Pre-processing of 10X Single-Cell RNA Datasets
• Single Cell / Pre-processing of 10X Single-Cell ATAC-seq Datasets
• Single Cell / Generating a single cell matrix using Alevin and combining datasets (bash + R) 📝 ⚙️
• Single Cell / Filter, plot, and explore single cell RNA-seq data with Seurat (R) 📝
• Single Cell / Single-cell ATAC-seq standard processing with SnapATAC2 📝 ⚙️
• Single Cell / Filter, plot, and explore single cell RNA-seq data with Seurat 📝
• Single Cell / Inferring single cell trajectories with Monocle3 (R) 📝
• Single Cell / Clustering 3K PBMCs with Scanpy
• Epigenetics / Formation of the Super-Structures on the Inactive X
• Transcriptomics / Genome-wide alternative splicing analysis 📝
• Transcriptomics / Small Non-coding RNA Clustering using BlockClust
• Transcriptomics / Whole transcriptome analysis of Arabidopsis thaliana
• Transcriptomics / Reference-based RNA-Seq data analysis ✍️
• Transcriptomics / RNA-RNA interactome data analysis

Slides

• Transcriptomics / Whole transcriptome analysis of Arabidopsis thaliana

Video Recordings

• Single Cell / Pre-processing of 10X Single-Cell RNA Datasets 💬 🗣
• Single Cell / Clustering 3K PBMCs with Scanpy 💬 🗣

Events

• Workshop on high-throughput sequencing data analysis with Galaxy 🧑‍🏫
• Galaxy Training Academy 2024 🧑‍🏫

News

External Links

Favourite Topics

Favourite Formats