theislab / scib-pipelineLinks
Snakemake pipeline that works with the scIB package to benchmark data integration methods.
☆79Updated 9 months ago
Alternatives and similar repositories for scib-pipeline
Users that are interested in scib-pipeline are comparing it to the libraries listed below
Sorting:
- Analysis of cell-cell communication at single-cell resolution☆105Updated last year
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆77Updated 2 months ago
- Single-Cell Clustering Assessment Framework☆106Updated 2 years ago
- Methods to compute Local Inverse Simpson's Index (LISI)☆70Updated 4 years ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆81Updated 7 months ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆121Updated 6 months ago
- Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.☆95Updated last year
- R package for semi-supervised single-cell data integration☆90Updated 3 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆67Updated last week
- ☆59Updated last year
- Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR☆93Updated last month
- Tutorial of single-cell RNA-ATAC multiomic sequencing data analysis☆68Updated last year
- Metacells - Single-cell RNA Sequencing Analysis☆115Updated last year
- A tool for semi-automatic cell type harmonization and integration☆114Updated last week
- Single Cell Cluster Evaluation☆98Updated 4 years ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆122Updated last month
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆159Updated last week
- A Bayesian model for compositional single-cell data analysis☆180Updated 2 years ago
- Single-cell Lung Cancer Atlas with 1.2M cells☆79Updated 9 months ago
- Efficient and precise single-cell reference atlas mapping with Symphony☆111Updated 2 weeks ago
- R package for Pathway RespOnsive GENe activity inference☆110Updated 2 years ago
- ☆126Updated 3 years ago
- STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)☆110Updated 6 months ago
- AUCell: score single cells with gene regulatory networks☆174Updated last year
- trajectory inference