topGO

Use when merging multiple Cufflinks transcript assemblies into a unified transcriptome for downstream differential expression analysis with Cuffdiff. Covers the full Cuffmerge workflow: creating assem

1 shared topic • 2 shared operations

GSEA — Gene Set Enrichment Analysis determines whether a priori defined gene sets show statistically significant, concordant differences between two biological states. Computes enrichment scores via a

1 shared topic • 2 shared operations

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

1 shared topic • 2 shared operations

Pegasus is a Python package for analyzing and visualizing large-scale single-cell and single-nucleus RNA-seq data, developed by the Broad Institute's Li Lab. Performs QC filtering, normalization, PCA,

1 shared topic • 2 shared operations

tximeta — R/Bioconductor package for importing transcript-level quantification data from Salmon, alevin, piscem, and other quantifiers with automatic metadata attachment. Automatically identifies the

1 shared topic • 2 shared operations