scverse / scanpy
Single-cell analysis in Python. Scales to >100M cells.
☆2,075Updated this week
Alternatives and similar repositories for scanpy:
Users that are interested in scanpy are comparing it to the libraries listed below
- Annotated data.☆617Updated this week
- Deep probabilistic analysis of single-cell and spatial omics data☆1,362Updated this week
- https://www.sc-best-practices.org☆889Updated this week
- Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq an…☆1,472Updated 2 years ago
- A list of scRNA-seq analysis tools☆692Updated last week
- Gene Set Enrichment Analysis in Python☆623Updated 3 weeks ago
- An interactive explorer for single-cell transcriptomics data☆670Updated last week
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,355Updated this week
- R toolkit for single cell genomics☆2,422Updated this week
- List of software packages for multi-omics analysis☆778Updated last week
- RNA Velocity generalized through dynamical modeling☆437Updated 2 months ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data☆690Updated last year
- Spatial Single Cell Analysis in Python☆485Updated this week
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆497Updated last year
- scRNAseq analysis notes from Ming Tang☆693Updated 4 months ago
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,290Updated last week
- Fast, sensitive and accurate integration of single-cell data with Harmony☆565Updated 5 months ago
- ☆556Updated 4 years ago
- ☆579Updated last week
- scripts and notebooks from sanbomics☆402Updated 5 months ago
- ☆377Updated 3 months ago
- Analysis of single cell RNA-seq data course☆674Updated 3 years ago
- RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.☆1,016Updated this week
- A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.☆605Updated last week
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆448Updated 3 months ago
- Unix, R and python tools for genomics and data science☆1,267Updated last month
- R package for detecting doublets in single-cell RNA sequencing data☆460Updated last month
- RNAseq analysis notes from Ming Tang☆1,002Updated 3 years ago
- Inferring CNV from Single-Cell RNA-Seq☆605Updated 2 months ago
- python module to plot beautiful and highly customizable genome browser tracks☆802Updated 9 months ago