This repository has snakemake scripts for salmon-deseq2 pipeline for RNAseq data analysis

Performed a differential gene expression analysis with RNA-seq that compares the expression in human control breast cancer cell lines with lines treated by silencing the NRDE2 gene. A Salmon + tximport + DESeq2 workflow was conducted to pursue this.

Simple Snakemake RNA-Seq pipeline

This repo contains code to pre-process, quant, and analyze RNA-Seq data obtained from human enteriod cell cultures

Jupyter notebooks for DGE results and ontology analysis and visualisation.

Simple Nextflow RNA-Seq pipeline

`rnaseq_pipeline` is a reproducible, end-to-end bulk RNA-seq workflow that takes you from raw FASTQ files to publication-ready results

Repository for bulk RNA-seq analyses (from undergrad 2nd-3rd year) – Reorganized