rnakato / ShortCakeLinks
A docker image for single-cell analysis
☆90Updated last week
Alternatives and similar repositories for ShortCake
Users that are interested in ShortCake are comparing it to the libraries listed below
Sorting:
- R package for Pathway RespOnsive GENe activity inference☆108Updated 2 years ago
- R package to access DoRothEA's regulons☆150Updated last year
- Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR☆93Updated last week
- Tools for single-cell data processing☆127Updated last year
- Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods☆97Updated 2 years ago
- SCSA: cell type annotation for single-cell RNA-seq data☆91Updated 2 years ago
- marker-based purification of cell types from single-cell RNA-seq datasets☆124Updated 2 months ago
- Pan-Cancer Single Cell Classifier☆79Updated last year
- A repository of pipelines for single-cell data in Nextflow DSL2☆75Updated 2 years ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆79Updated 6 months ago
- ☆70Updated last year
- Efficient and precise single-cell reference atlas mapping with Symphony☆110Updated 2 years ago
- trajectory inference☆105Updated 8 months ago
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆84Updated 4 years ago
- ☆86Updated last month
- A Shiny web app for mapping datasets using Seurat v4☆132Updated 11 months ago
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆157Updated last month
- ☆73Updated 2 years ago
- ☆62Updated 5 years ago
- Methods to compute Local Inverse Simpson's Index (LISI)☆68Updated 4 years ago
- AUCell: score single cells with gene regulatory networks☆169Updated last year
- Cluster single cells and analyze cell clade relationships with colorful visualizations.☆113Updated 11 months ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆117Updated 4 months ago
- A tool for unsupervised projection of single cell RNA-seq data☆95Updated 4 years ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆77Updated 8 months ago
- A tool that allows to get UMI counts from a single cell protein assay☆85Updated 5 months ago
- SingleCellNet: classify single cells across species and platforms☆138Updated 2 years ago
- R package for semi-supervised single-cell data integration☆90Updated last month
- Analysis of cell-cell communication at single-cell resolution☆104Updated last year
- Context specific and dynamic gene regulatory network reconstruction and analysis☆122Updated 3 weeks ago