theislab / scarches
Reference mapping for single-cell genomics
☆362Updated 2 months ago
Alternatives and similar repositories for scarches:
Users that are interested in scarches are comparing it to the libraries listed below
- Benchmarking analysis of data integration tools☆346Updated 3 months ago
- A tool for semi-automatic cell type classification☆357Updated last month
- Scanpy Tutorials.☆212Updated this week
- This is the alpha version of the CellOracle package☆347Updated 3 months ago
- A package to help convert different single-cell data formats to each other☆418Updated last year
- Python package to perform enrichment analysis from omics data.☆192Updated this week
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆380Updated 3 months ago
- A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…☆184Updated 2 months ago
- LIANA+: an all-in-one framework for cell-cell communication☆204Updated 2 months ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆323Updated 9 months ago
- Interpretation of cell states using reference single-cell maps☆269Updated last week
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆353Updated 10 months ago
- Analysis Pipeline for Single Cell ATAC-seq☆317Updated last year
- NicheNet: predict active ligand-target links between interacting cells☆534Updated 2 weeks ago
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆327Updated last month
- Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data☆226Updated last year
- muon is a multimodal omics Python framework☆231Updated last month
- Panoramic stitching of single cell data☆277Updated last year
- Single-cell epigenomics analysis tools☆256Updated last week
- A novel machine learning pipeline to analyse spatial transcriptomics data☆218Updated 11 months ago
- A tool for detecting somatic variants in single cell data☆198Updated 7 months ago
- tools and notes for spatial omics☆284Updated 2 months ago
- A toolkit for single-cell immune profiling☆330Updated 3 weeks ago
- EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.☆197Updated last year
- Perturbation Analysis in the scverse ecosystem.☆170Updated this week
- T/B cell receptor sequencing analysis notes☆248Updated 4 months ago
- Episcanpy: Epigenomics Single Cell Analysis in Python☆144Updated 4 months ago
- RNA Velocity generalized through dynamical modeling☆437Updated 2 months ago
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆216Updated 3 months ago
- Benchmarking computational single cell ATAC-seq methods☆182Updated 4 years ago