satijalab / seurat
R toolkit for single cell genomics
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R toolkit for single cell genomics
R toolkit for the analysis of single-cell chromatin data
Read flat files (csv, tsv, fwf) into R
Simple Features for R
phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; and to reproducibly share that data and analysis with others. See the phyloseq front page:
An interactive graphing library for R
ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
Community-provided extensions to Seurat
Inferring CNV from Single-Cell RNA-Seq
Accurate sample inference from amplicon data with single nucleotide resolution
R package for community ecologists: popular ordination methods, ecological null models & diversity analysis
Install R packages from GitHub, GitLab, Bitbucket, git, svn repositories, URLs
Interfaces for HDF5-based Single Cell File Formats
Make Complex Heatmaps
📊 A universal enrichment tool for interpreting omics data
R for data science: a book