Best practice RNA-Seq analysis pipeline for reference-based RNA-Seq analysis

(formerly eelpond) an automated RNA-Seq workflow system

shiny app for WGCNA...

A comprehensive pipeline for RNAseq data analysis

Code, documentation, and tutorials for the DGD model trained on bulk RNA-Seq data.

Flujos de trabajos desarrollados y automatizados en el Inmegen para el procesamiento de datos genómicos y transcriptómicos.

Docker Integrated Comparison of Alternative Splicing (AS) Tools. Benchmarking AS tools and genomic alignment tools.

This repo is a template for running differential gene expression analysis of RNA-seq count data followed by gene set enrichment analysis. This workflow is run in R using Rmarkdown. It is based around the popular R packages, DESeq2, fGSEA, and others.

The TRMRNASeqTools is a SHELL and Python based pipeline designed for automatic general analysis for TRM sRNA sequencing data in supported plants.

Guide and links related to bulk and single-cell RNA-Seq experiments.

A script to analyze with DESeq2 data from Kallisto. You maybe are interested only in DESeq2 part and its analisis and representation :)

bulk-RNAseq analysis for Transcriptomics Course 2021 (MSc Bioinformatics for Computational Genomics)

This project was conducted for the Stanford BioHacks hackathon.

Simple Snakemake RNA-Seq pipeline

Code for Cornel et al., Submitted (2023)

Custom workflow for analysis of RNAseq data

IMOM - A pipeline for interacting with, processing, and analyzing multi-OM datasets in phylogenetic and evolutionary context

A book that discusses topics and contains tutorials relevant to population genomics

This GitHub repo supports a project, led by Delphine Galiana. It explores the innate immune response to viral infections, focusing on the role of plasmacytoid dendritic cells (pDCs) and the impact of alternative splicing in their antiviral response.

Breast Cancer Survival Prediction