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

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

Slides

• Transcriptomics / Whole transcriptome analysis of Arabidopsis thaliana

News

External Links

Favourite Topics

Favourite Formats