theislab / anndata2riLinks
Convert between AnnData and SingleCellExperiment
☆142Updated last week
Alternatives and similar repositories for anndata2ri
Users that are interested in anndata2ri are comparing it to the libraries listed below
Sorting:
- Single-Cell Clustering Assessment Framework☆107Updated 2 years ago
- A Bayesian model for compositional single-cell data analysis☆183Updated 2 years ago
- Python implementation of Milo for differential abundance testing on KNN graph☆76Updated 9 months ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆80Updated 10 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…☆109Updated 2 weeks ago
- Metacells - Single-cell RNA Sequencing Analysis☆116Updated last year
- ☆131Updated 2 years ago
- Analysis of cell-cell communication at single-cell resolution☆105Updated last year
- Direct estimation of mean and covariance from single cell RNA seq experiments☆123Updated 7 months ago
- Cluster single cells and analyze cell clade relationships with colorful visualizations.☆114Updated last year
- Context specific and dynamic gene regulatory network reconstruction and analysis☆123Updated last week
- Episcanpy: Epigenomics Single Cell Analysis in Python☆149Updated last year
- R package to access DoRothEA's regulons☆154Updated last year
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆160Updated last month
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆169Updated 8 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆77Updated 2 months ago
- Efficient and precise single-cell reference atlas mapping with Symphony☆112Updated last month
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆88Updated 8 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆81Updated 8 months ago
- trajectory inference☆105Updated 10 months ago
- Multiome GRN inference.☆131Updated last year
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆169Updated last year
- software to detect doublets☆95Updated 11 months ago
- A tool that allows to get UMI counts from a single cell protein assay☆86Updated 7 months ago
- AUCell: score single cells with gene regulatory networks☆174Updated last year
- Metacell - Single-cell mRNA Analysis☆117Updated 10 months ago
- ☆84Updated this week
- Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR☆93Updated this week
- In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes☆117Updated last month
- Conversion between scRNA-seq objects☆193Updated last week