mpralm

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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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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Use when performing differential gene expression analysis on RNA-seq count data using limma-voom. Covers the full workflow: count filtering with filterByExpr, TMM normalization via edgeR calcNormFacto

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MPRADesignTools — R package for designing Massively Parallel Reporter Assay (MPRA) experiments. Provides oligo library design, sample size estimation, barcode generation, sequence tiling, and statisti

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MSstats — Bioconductor R package for statistical analysis of quantitative mass spectrometry-based proteomics experiments. Supports label-free DDA, TMT, iTRAQ, SRM/MRM, and DIA workflows. Provides prep

1 shared topic • 2 shared operations