78 Open source projects that are alternatives of or similar to celltypist

💡 💾 💽 A simple, intuitive and Efficient single cell binary Data Storage format

spatial transcriptome, single cell

characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular densities

Differential expression (DE); gene set Enrichment Analysis (GSEA); single cell RNAseq studies (scRNAseq)

Methods for detecting doublets in single-cell sequencing data

mgatk: mitochondrial genome analysis toolkit

An online companion to the OSCA manuscript demonstrating Bioconductor resources and workflows for single-cell RNA-seq analysis.

Multiome GRN inference.

Data analysis scripts for Datlinger et. al, 2017 (doi:10.1038/nmeth.4177)

R API and htmlwidget for Vitessce

Cell type specific enrichments using finemapped variants and quantitative epigenetic data

Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

Non-official Git repository for R package cellrangerRkit (currently not available elsewhere; I'm not affiliated with 10x)

Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-cell datasets.

🧬 Immunarch by ImmunoMind: R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires

GCModeller: genomics CAD(Computer Assistant Design) Modeller system in .NET language

CellNet: network biology applied to stem cell engineering

CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology