scverse / scanpyLinks
Single-cell analysis in Python. Scales to >100M cells.
☆2,105Updated this week
Alternatives and similar repositories for scanpy
Users that are interested in scanpy are comparing it to the libraries listed below
Sorting:
- Deep probabilistic analysis of single-cell and spatial omics data☆1,380Updated last week
- Annotated data.☆627Updated this week
- R toolkit for single cell genomics☆2,441Updated last week
- Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…☆1,480Updated 2 years ago
- https://www.sc-best-practices.org☆918Updated last week
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,395Updated last week
- An interactive explorer for single-cell transcriptomics data☆685Updated 3 weeks ago
- Analysis of single cell RNA-seq data course☆674Updated 3 years ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆504Updated last year
- Gene Set Enrichment Analysis in Python☆632Updated this week
- RNA Velocity generalized through dynamical modeling☆447Updated 3 months ago
- A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.☆641Updated this week
- A list of scRNA-seq analysis tools☆702Updated this week
- Fast, sensitive and accurate integration of single-cell data with Harmony☆574Updated 6 months ago
- scripts and notebooks from sanbomics☆409Updated 6 months ago
- ☆565Updated 4 years ago
- Inferring CNV from Single-Cell RNA-Seq☆616Updated 4 months ago
- ☆595Updated last month
- List of software packages for multi-omics analysis☆801Updated last month
- ChIP-seq analysis notes from Ming Tang☆802Updated 10 months ago
- 10x Genomics Single Cell Analysis☆412Updated 3 months ago
- RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.☆1,037Updated this week
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,309Updated last week
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics☆411Updated last month
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆396Updated this week
- Spatial Single Cell Analysis in Python☆488Updated this week
- An overview of algorithms for estimating pseudotime in single-cell RNA-seq data☆425Updated 2 weeks ago
- A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.☆652Updated this week
- RNAseq analysis notes from Ming Tang☆1,012Updated 3 years ago
- scRNAseq analysis notes from Ming Tang☆706Updated 6 months ago