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  • Dockerfile 1 MIT License Updated Oct 15, 2024
  • spacexr Public

    Forked from dmcable/spacexr

    Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics

    HTML GNU General Public License v3.0 Updated Apr 5, 2024
  • Docker images

    Dockerfile MIT License Updated May 20, 2022
  • cellpose Public

    Forked from MouseLand/cellpose

    a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

    Jupyter Notebook BSD 3-Clause "New" or "Revised" License Updated May 1, 2022
  • chemprop Public

    Forked from chemprop/chemprop

    Message Passing Neural Networks for Molecule Property Prediction

    Python MIT License Updated Apr 1, 2022
  • nfCore_scRNA Public

    Forked from wtsi-hgi/yascp

    Combined Repo of the Cellbender, Deconvolution and QC metrics placed in nfCore template for transferability between institutions and different HPC setups.

    Python GNU General Public License v3.0 Updated Nov 2, 2021
  • muon Public

    Forked from scverse/muon

    muon is a multimodal omics Python framework

    Python BSD 3-Clause "New" or "Revised" License Updated Oct 8, 2021
  • drawCell Public

    Forked from svalvaro/drawCell

    R package to create cell pictures.

    R Updated Aug 18, 2021
  • rnaseq Public

    Forked from nf-core/rnaseq

    RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

    Nextflow MIT License Updated May 13, 2021
  • TwoSampleMR Public

    Forked from MRCIEU/TwoSampleMR

    R package for performing 2-sample MR using MR-Base database

    HTML Other Updated Mar 12, 2021
  • Python Updated Mar 9, 2021
  • Conda recipes

    Shell MIT License Updated Mar 1, 2021
  • gwas-lecture Public

    Forked from timeu/gwas-lecture

    Lectures on Genome Wide Association Studies (GWAS) using Python, Limix and Jupyter Noteboos

    Jupyter Notebook Updated Nov 20, 2020
  • DENTIST Public

    Forked from Yves-CHEN/DENTIST

    DENTIST (Detecting Errors iN analyses of summary staTISTics) is a QC tool for summary-data-based analyses.

    C++ Updated Sep 18, 2020
  • Python BSD 3-Clause "New" or "Revised" License Updated Jul 26, 2020
  • CELLECT Public

    Forked from perslab/CELLECT

    CELLECT (CELL-type Expression-specific integration for Complex Traits)

    Python Updated May 31, 2020
  • This repository contains lists of various marker genes.

    R 1 MIT License Updated May 19, 2020
  • CELLEX Public

    Forked from perslab/CELLEX

    CELLEX (CELL-type EXpression-specificity)

    Jupyter Notebook GNU General Public License v3.0 Updated May 11, 2020
  • A repository for the scrublet module of the vib-singlecell-nf pipeline

    Nextflow GNU General Public License v3.0 Updated Apr 10, 2020
  • scfind Public

    Forked from hemberg-lab/scfind
    R GNU General Public License v3.0 Updated Mar 20, 2020
  • 💪 Models' quality and performance metrics (R2, ICC, LOO, AIC, BF, ...)

    R GNU General Public License v3.0 Updated Mar 4, 2020
  • MPRA_Khetan Public

    Forked from UcarLab/MPRA_Khetan
    HTML Updated Feb 20, 2020
  • Scanpy use cases.

    HTML BSD 3-Clause "New" or "Revised" License Updated Feb 11, 2020
  • batchbench Public

    Forked from cellgeni/batchbench
    R GNU General Public License v3.0 Updated Feb 3, 2020
  • Calculates the overlap of variants in LD with features from BED files

    R 1 1 Other Updated Dec 12, 2019
  • skylab Public

    Forked from HumanCellAtlas/skylab

    Secondary analysis pipelines

    WDL BSD 3-Clause "New" or "Revised" License Updated Nov 25, 2019
  • Python pipeline and Javascript scatter plot library for single-cell datasets, http://cellbrowser.rtfd.org

    JavaScript GNU General Public License v3.0 Updated Nov 21, 2019
  • dropSeqPipe Public

    Forked from Hoohm/dropSeqPipe

    A SingleCell RNASeq pre-processing snakemake workflow

    R Creative Commons Attribution Share Alike 4.0 International Updated Nov 20, 2019
  • zUMIs Public

    Forked from sdparekh/zUMIs

    zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs

    R GNU General Public License v3.0 Updated Nov 12, 2019
  • scRNAseq analysis notes from Ming Tang

    MIT License Updated Nov 11, 2019