linnarsson-lab / loompyLinks
Python implementation of the Loom file format - http://loompy.org
☆144Updated 7 months ago
Alternatives and similar repositories for loompy
Users that are interested in loompy are comparing it to the libraries listed below
Sorting:
- Doublet detection in single-cell RNA-seq data.☆91Updated 5 months ago
- ☆68Updated 7 years ago
- Fast visualization tool for large-scale and high dimensional single-cell data☆74Updated 2 years ago
- Detect doublets in single-cell RNA-seq data☆85Updated 6 years ago
- Scanpy use cases.☆85Updated 4 years ago
- RNA velocity estimation in Python☆171Updated 2 months ago
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆91Updated 5 years ago
- A SingleCell RNASeq pre-processing snakemake workflow☆149Updated 2 years ago
- Course material in notebook format for learning about single cell bioinformatics methods☆99Updated 9 years ago
- TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data☆130Updated last year
- Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with mill…☆100Updated 3 months ago
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆140Updated last year
- scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources…☆106Updated 2 years ago
- main repo: https://github.com/ucscGenomeBrowser/cellBrowser/ - Python pipeline and Javascript scatter plot library for single-cell datase…☆111Updated 2 years ago
- CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology☆65Updated 2 years ago
- Tools for working with BUS files☆100Updated last month
- Genetic multiplexing of barcoded single cell RNA-seq☆127Updated last year
- Code and annotations for the Tabula Muris single-cell transcriptomic dataset.☆192Updated 2 years ago
- A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.☆102Updated 2 years ago
- Java tools for analyzing Drop-seq data☆128Updated last week
- Tutorials, workflows, and convenience scripts for Single Cell Portal☆50Updated last year
- A tool that allows to get UMI counts from a single cell protein assay☆82Updated 2 months ago
- ☆117Updated last year
- Cluster single cells and analyze cell clade relationships with colorful visualizations.☆114Updated 8 months ago
- Tools for single-cell data processing☆125Updated last year
- A repository of pipelines for single-cell data in Nextflow DSL2☆75Updated 2 years ago
- Pipeline for initial analysis of droplet-based single-cell RNA-seq data☆91Updated 3 years ago
- Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed in…☆120Updated last year
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆150Updated last month
- Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.☆110Updated 8 months ago