A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

Differential expression analysis for single-cell RNA-seq data.

Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.

Porting DESeq2 into python via rpy2

A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.

Fit generalized linear models in python.

pseudobulking on an AnnData object

Interactive visualizations for differential expression

A robust model for quantitative comparison of ChIP-Seq data sets.

Discrete Distributional Differential Expression

Causal inference, differential expression, and co-expression for scRNA-seq

Curare - A customizable and reproducible analysis pipeline for RNA-Seq experiments

Provided tool will add explicit 3'UTR and extends it into a valid Ensembl GTF file. It's useful for 3'RNAseq when 3' coordinates might not be as good as you expect.

NASA GeneLab Open API

Differential analysis of targeted Isotope-labeled Metabolomics data

Transcriptiome Analysis in Python Imported from R

Analysis pipeline for bulk RNA-seq data

Testing, development environment for a new project of KN BIBS

Perform differential analysis from FastQ files with Salmon, tximport, and DESeq2

Differential expression across the genome