lilab-bcb / cirrocumulusLinks
Bring your single-cell data to life
☆87Updated last week
Alternatives and similar repositories for cirrocumulus
Users that are interested in cirrocumulus are comparing it to the libraries listed below
Sorting:
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆64Updated last month
- ☆69Updated last year
- ☆44Updated last week
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆83Updated 4 years ago
- A docker image for single-cell analysis☆88Updated 6 months ago
- Single-Cell Clustering Assessment Framework☆105Updated last year
- trajectory inference☆104Updated 6 months ago
- Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with mill…☆101Updated 3 months ago
- A method to rapidly assess cell type identity using both functional and random gene sets☆39Updated 6 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆63Updated this week
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆79Updated 4 months ago
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆156Updated last week
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆40Updated 2 months ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆112Updated 2 months ago
- Convert between AnnData and SingleCellExperiment☆137Updated last week
- Probabilistic cell segmentation for in situ spatial transcriptomics☆111Updated this week
- Gene regulatory network containing signed transcription factor-target gene interactions☆85Updated 2 months ago
- Context specific and dynamic gene regulatory network reconstruction and analysis☆120Updated 3 weeks ago
- An R package for handling and analysing imaging mass cytometry data☆27Updated 3 weeks ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆44Updated 3 years ago
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆85Updated 4 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆70Updated last week
- Quasilinear data representations for single-cell omics data analysis☆42Updated 2 years ago
- Doublet detection in single-cell RNA-seq data.☆92Updated 5 months ago
- R package for Pathway RespOnsive GENe activity inference☆106Updated 2 years ago
- ☆80Updated last week
- Single-cell Lung Cancer Atlas with 1.2M cells☆65Updated 6 months ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆75Updated 6 months ago
- software to detect doublets☆93Updated 7 months ago
- .h5mu files interface for Seurat☆32Updated last year