flowCore

BUStools — C toolkit for manipulating BUS (Barcode, UMI, Set) files from single-cell RNA-seq pseudoalignment. Provides sorting, barcode error correction, UMI counting, matrix generation, quality inspe

2 shared topics • 1 shared operation

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

Human Cell Atlas (HCA) tools — programmatic access to the HCA Data Portal, Data Coordination Platform (DCP), and matrix service for single-cell genomics datasets. Covers the hca Python CLI client, Azu

2 shared topics • 1 shared operation

estimate-compute-requirements — predict CPU, memory, wall time, and storage for bioinformatics pipelines given input data size and tool selection. Generates per-step resource tables, platform-specific

2 shared topics

Seurat — comprehensive R toolkit for single-cell genomics enabling QC, normalization (LogNormalize, SCTransform), feature selection, dimensionality reduction (PCA, UMAP, t-SNE), graph-based clustering

2 shared topics