linnarsson-lab / loompyLinks
Python implementation of the Loom file format - http://loompy.org
☆146Updated 9 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☆85Updated 6 years ago
- Doublet detection in single-cell RNA-seq data.☆92Updated 7 months ago
- Fast visualization tool for large-scale and high dimensional single-cell data☆74Updated 2 years ago
- RNA velocity estimation in Python☆172Updated 4 months ago
- ☆69Updated 7 years ago
- Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.☆112Updated 10 months ago
- Scanpy use cases.☆86Updated 5 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…☆103Updated 5 months ago
- Pipeline for initial analysis of droplet-based single-cell RNA-seq data☆92Updated 3 years ago
- TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data☆130Updated last year
- Tools for single-cell data processing☆126Updated last year
- Java tools for analyzing Drop-seq data☆130Updated this week
- CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology☆67Updated 2 years ago
- scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources…☆107Updated 2 years ago
- A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing☆171Updated 3 months ago
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆95Updated 6 years ago
- Convert between AnnData and SingleCellExperiment☆139Updated last week
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆142Updated last year
- kallisto | bustools workflow for pre-processing single-cell RNA-seq data☆119Updated 3 years ago
- Genetic multiplexing of barcoded single cell RNA-seq☆129Updated last year
- main repo: https://github.com/ucscGenomeBrowser/cellBrowser/ - Python pipeline and Javascript scatter plot library for single-cell datase…☆113Updated 2 years ago
- ☆85Updated 5 years ago
- A SingleCell RNASeq pre-processing snakemake workflow☆148Updated 2 years ago
- Tools for working with BUS files☆101Updated 3 months ago
- Filtering of Poison noise on a single-cell RNA-seq UMI count matrix☆78Updated 4 months ago
- Cluster single cells and analyze cell clade relationships with colorful visualizations.☆113Updated 10 months ago
- ☆70Updated last year
- Material for lecture at the EMBL Single Cell Course 2016☆47Updated 9 years ago
- A tool for the unsupervised clustering of cells from single cell RNA-Seq experiments☆128Updated 4 years ago
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆157Updated 2 weeks ago