linnarsson-lab / loompyLinks
Python implementation of the Loom file format - http://loompy.org
☆148Updated last year
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.☆96Updated 11 months ago
- Detect doublets in single-cell RNA-seq data☆86Updated 6 years ago
- Fast visualization tool for large-scale and high dimensional single-cell data☆77Updated 3 weeks ago
- RNA velocity estimation in Python☆175Updated 3 months ago
- ☆69Updated 7 years ago
- Genetic multiplexing of barcoded single cell RNA-seq☆131Updated last year
- Pipeline for initial analysis of droplet-based single-cell RNA-seq data☆95Updated 3 years ago
- Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.☆111Updated 2 months ago
- Java tools for analyzing Drop-seq data☆131Updated 2 weeks ago
- kallisto | bustools workflow for pre-processing single-cell RNA-seq data☆119Updated 3 years ago
- 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 SingleCell RNASeq pre-processing snakemake workflow☆148Updated 2 years ago
- Tools for single-cell data processing☆131Updated last year
- A tool for the unsupervised clustering of cells from single cell RNA-Seq experiments☆128Updated 4 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…☆110Updated last month
- TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data☆132Updated 2 years ago
- A repository of pipelines for single-cell data in Nextflow DSL2☆80Updated 2 years ago
- CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology☆68Updated 2 years ago
- Scanpy use cases.☆88Updated 5 years ago
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆97Updated 6 years ago
- main repo: https://github.com/ucscGenomeBrowser/cellBrowser/ - Python pipeline and Javascript scatter plot library for single-cell datase…☆113Updated 2 years ago
- A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing☆182Updated 2 months ago
- Filtering of Poison noise on a single-cell RNA-seq UMI count matrix☆78Updated last month
- Course material in notebook format for learning about single cell bioinformatics methods☆100Updated 9 years ago
- Material for lecture at the EMBL Single Cell Course 2016☆47Updated 9 years ago
- ☆85Updated 5 years ago
- nucleosome calling using ATAC-seq☆109Updated 5 years ago
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆143Updated last year
- Convert between AnnData and SingleCellExperiment☆143Updated 2 weeks ago
- chromatin Variability Across Regions (of the genome!)☆185Updated last year