rhdf5

Use when working with EmptyDrops or DropletUtils — the Bioconductor R package for distinguishing real cells from empty droplets in droplet-based single-cell RNA-seq data (10x Genomics, Drop-seq, inDro

2 shared topics • 1 shared operation

Use when performing single-cell QTL (sc-eQTL, sc-sQTL) mapping with SAIGE-QTL. SAIGE-QTL extends the SAIGE framework to single-cell RNA-seq data using Poisson mixed models to handle count overdispersi

2 shared topics • 1 shared operation

salmon — Fast, bias-aware transcript quantification from RNA-seq data using selective alignment to the transcriptome. Supports bulk RNA-seq (mapping-based and alignment-based modes), single-cell RNA-s

2 shared topics • 1 shared operation

scirpy -- Python toolkit for single-cell immune receptor (TCR and BCR) repertoire analysis built on the scverse ecosystem. Defines clonotypes from paired chain data using CDR3 nucleotide/amino acid se

2 shared topics • 1 shared operation

scRepertoire -- R package for analyzing T cell receptor (TCR) and B cell receptor (BCR) repertoires from single-cell sequencing data. Integrates with Seurat and SingleCellExperiment objects to combine

2 shared topics • 1 shared operation