baySeq

Bioconductor ExperimentHub — unified R interface for discovering and downloading global experimental genomics data resources (single-cell RNA-seq, bulk RNA-seq, ChIP-seq, ATAC-seq, proteomics, methyla

2 shared topics • 2 shared operations

HOMER (Hypergeometric Optimization of Motif EnRichment) — a comprehensive suite of tools for motif discovery and next-generation sequencing analysis. HOMER performs de novo motif finding optimized for

2 shared topics • 1 shared operation

RASQUAL (Robust Allele Specific QUantification and quality controL) — joint QTL mapping tool that integrates total read counts and allele-specific reads for cis-regulatory variant discovery. Detects i

2 shared topics • 1 shared operation

Use when working with systemPipeR, the Bioconductor workflow environment that combines R and command-line tools through CWL-backed workflow definitions. Covers systemPipeRdata::genWorkenvir, genWorken

2 shared topics • 1 shared operation

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

1 shared topic • 2 shared operations