MPRADesignTools

Differential expression analysis for RNA-seq data using negative binomial generalized linear models with size factor normalization and empirical Bayes shrinkage.

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mpralm is an R/Bioconductor package for differential activity analysis of Massively Parallel Reporter Assays (MPRA). It uses a limma-voom-style framework to compare RNA barcode counts to DNA barcode c

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Use when working with nf-core/differentialabundance — a reproducible Nextflow pipeline for differential abundance analysis of count data from RNA-seq, ATAC- seq, proteomics, or any feature-by-sample c

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PyDESeq2 — Python implementation of DESeq2 for differential gene expression analysis from bulk RNA-seq count data. Performs size factor normalization, genewise dispersion estimation, Wald tests with B

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scde is a Bioconductor R package for Bayesian single-cell differential expression analysis using mixture models. It fits a per-cell error model (negative binomial + Poisson noise) to raw count data, t

1 shared topic • 2 shared operations