linnarsson-lab / loompy
Python implementation of the Loom file format - http://loompy.org
☆142Updated 2 months ago
Alternatives and similar repositories for loompy:
Users that are interested in loompy are comparing it to the libraries listed below
- Fast visualization tool for large-scale and high dimensional single-cell data☆69Updated last year
- Detect doublets in single-cell RNA-seq data☆85Updated 5 years ago
- RNA velocity estimation in Python☆164Updated last year
- chromatin Variability Across Regions (of the genome!)☆165Updated 7 months ago
- Tools for single-cell data processing☆122Updated 8 months ago
- Java tools for analyzing Drop-seq data☆124Updated last week
- Doublet detection in single-cell RNA-seq data.☆90Updated last week
- Scanpy use cases.☆81Updated 4 years ago
- Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.☆108Updated 3 months ago
- A SingleCell RNASeq pre-processing snakemake workflow☆146Updated 2 years ago
- A repository of pipelines for single-cell data in Nextflow DSL2☆75Updated last year
- ☆67Updated 6 years ago
- ☆67Updated 9 months ago
- Code and annotations for the Tabula Muris single-cell transcriptomic dataset.☆190Updated last year
- Pipeline for initial analysis of droplet-based single-cell RNA-seq data☆91Updated 2 years ago
- Efficient genotyping bi-allelic SNPs on single cells☆138Updated 7 months ago
- Single-cell RNA-seq Gene Expression Recovery☆110Updated 2 months ago
- Convert between AnnData and SingleCellExperiment☆131Updated this week
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆157Updated last year
- Single-Cell Clustering Assessment Framework☆98Updated last year
- Episcanpy: Epigenomics Single Cell Analysis in Python☆141Updated 2 months ago
- Differential expression analysis for single-cell RNA-seq data.☆196Updated last year
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆135Updated 10 months ago
- Detect doublets in single-cell RNA-seq data☆139Updated 4 years ago
- nucleosome calling using ATAC-seq☆106Updated 4 years ago
- dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data☆112Updated this week
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆87Updated 5 years ago
- A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.☆101Updated 2 years ago
- kallisto | bustools workflow for pre-processing single-cell RNA-seq data☆117Updated 2 years ago
- R implementation of MULTI-seq sample classification workflow☆61Updated last year