theislab / anndata2riLinks
Convert between AnnData and SingleCellExperiment
☆137Updated this 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☆103Updated last year
- Direct estimation of mean and covariance from single cell RNA seq experiments☆110Updated 2 months ago
- ☆130Updated last year
- Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with mill…☆100Updated 2 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆72Updated 4 months ago
- A Bayesian model for compositional single-cell data analysis☆169Updated 2 years ago
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆150Updated last month
- software to detect doublets☆93Updated 6 months ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆74Updated 5 months ago
- Episcanpy: Epigenomics Single Cell Analysis in Python☆144Updated 7 months ago
- Metacells - Single-cell RNA Sequencing Analysis☆108Updated 9 months ago
- trajectory inference☆104Updated 5 months ago
- Cluster single cells and analyze cell clade relationships with colorful visualizations.☆114Updated 8 months ago
- dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data☆117Updated this week
- Conversion between scRNA-seq objects☆178Updated 3 weeks ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆164Updated 3 months ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆68Updated this week
- ☆79Updated this week
- Test genes for Spatial Variation☆172Updated last year
- Scanpy use cases.☆85Updated 4 years ago
- Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR☆89Updated last year
- R package to access DoRothEA's regulons☆149Updated last year
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆162Updated last year
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆77Updated 3 months ago
- A tool that allows to get UMI counts from a single cell protein assay☆82Updated 2 months ago
- scDIOR: Single cell data IO softwaRe☆143Updated 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
- BANKSY: spatial clustering☆117Updated 2 weeks ago
- A docker image for single-cell analysis☆88Updated 5 months ago
- reticulate-free single cell format conversion☆171Updated this week