gget

Giotto Suite — R toolkit for spatial multi-omics analysis at all scales and resolutions. Processes data from Visium, MERFISH, Xenium, CosMx, Slide-seq, CODEX, Stereo-seq, and other spatial technologie

1 shared topic • 1 shared operation

Harmony -- fast and scalable single-cell data integration and batch correction algorithm. Operates on PCA embeddings using iterative soft k-means clustering to remove batch effects while preserving bi

1 shared topic • 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

1 shared topic • 1 shared operation

Salmon is an ultrafast, bias-correcting tool for quantifying transcript abundances from RNA-seq reads using quasi-mapping or selective alignment. Alevin is Salmon's single-cell mode for generating cel

1 shared topic • 1 shared operation

Tools for manipulating next-generation sequencing data stored in SAM/BAM/CRAM format, including sorting, indexing, and format conversion.

1 shared topic • 1 shared operation