linnarsson-lab / loompyLinks
Python implementation of the Loom file format - http://loompy.org
☆148Updated 11 months ago
Alternatives and similar repositories for loompy
Users that are interested in loompy are comparing it to the libraries listed below
Sorting:
- Detect doublets in single-cell RNA-seq data☆86Updated 6 years ago
- Doublet detection in single-cell RNA-seq data.☆96Updated 10 months ago
- ☆69Updated 7 years ago
- RNA velocity estimation in Python☆174Updated 2 months ago
- Scanpy use cases.☆87Updated 5 years ago
- Fast visualization tool for large-scale and high dimensional single-cell data☆76Updated 2 years ago
- Tools for single-cell data processing☆128Updated last year
- Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.☆112Updated last month
- Pipeline for initial analysis of droplet-based single-cell RNA-seq data☆95Updated 3 years ago
- Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with mill…☆109Updated 3 weeks ago
- A SingleCell RNASeq pre-processing snakemake workflow☆148Updated 2 years ago
- A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing☆181Updated last month
- main repo: https://github.com/ucscGenomeBrowser/cellBrowser/ - Python pipeline and Javascript scatter plot library for single-cell datase…☆113Updated 2 years ago
- Course material in notebook format for learning about single cell bioinformatics methods☆99Updated 9 years ago
- Java tools for analyzing Drop-seq data☆131Updated this week
- TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data☆132Updated 2 years ago
- Tools for working with BUS files☆102Updated 6 months ago
- kallisto | bustools workflow for pre-processing single-cell RNA-seq data☆118Updated 3 years ago
- CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology☆67Updated 2 years ago
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆142Updated last year
- AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-…☆106Updated 3 years ago
- A tool that allows to get UMI counts from a single cell protein assay☆86Updated 7 months ago
- nucleosome calling using ATAC-seq☆109Updated 4 years ago
- Material for lecture at the EMBL Single Cell Course 2016☆47Updated 9 years ago
- chromatin Variability Across Regions (of the genome!)☆182Updated last year
- Genetic multiplexing of barcoded single cell RNA-seq☆131Updated last year
- ☆85Updated 5 years ago
- A tool for the unsupervised clustering of cells from single cell RNA-Seq experiments☆128Updated 4 years ago
- Pipeline for processing inDrops sequencing data☆76Updated 7 years ago
- Code and annotations for the Tabula Muris single-cell transcriptomic dataset.☆194Updated 2 years ago