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@genepattern

GenePattern

A Platform for Reproducible Bioinformatics

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  1. genepattern-notebook Public

    Platform for integrating genomic analysis with Jupyter Notebooks.

    Python 44 12

  2. genepattern-server Public

    The GenePattern Server web application

    HTML 36 17

  3. genepattern-python Public

    GenePattern Python Library

    Python 11 3

Repositories

Showing 10 of 247 repositories
  • h5adtoGCT Public

    H5adToGCT is a Python-based tool that converts AnnData (h5ad) files to Gene Cluster Text (GCT) format. This tool is particularly useful for single-cell RNA-seq data analysis workflows.

    Python 0 0 0 0 Updated Apr 1, 2025
  • tfsites.FindTfSitesAlteredBySequenceVariation Public

    Farley Lab UCSD Collaboration

    Shell 0 BSD-3-Clause 0 0 0 Updated Mar 31, 2025
  • genepattern-website Public

    GenePattern website and associated scripts

    HTML 0 0 0 0 Updated Mar 27, 2025
  • tfsites.VisualizeTFSitesOnSequences Public

    Farley lab collaboration

    0 0 0 0 Updated Mar 26, 2025
  • tfsites.MapTfDNAInteractions Public

    Maps the crystal structure for a transcription factor

    Dockerfile 0 0 0 0 Updated Mar 26, 2025
  • AmpliconSuite Public Forked from edwin5588/paa_custom

    Wraps the AmpliconSuite-pipeline workflow to identify one or more connected genomic regions which have copy number amplifications.

    Python 1 2 0 0 Updated Mar 26, 2025
  • CoxRegression Public

    Cox regression using clinical data and .cls file

    R 0 0 0 0 Updated Mar 25, 2025
  • Single.Cell.ssGSEA Public

    A version of Single Sample GSEA adapted to the sparsity of single cell RNA-seq data

    Python 0 0 0 0 Updated Mar 14, 2025
  • spatialGE.STgradient.Launcher Public

    Launch expression spatial gradients based on https://github.com/FridleyLab/spatialGE

    JavaScript 0 0 0 0 Updated Mar 13, 2025
  • spatialGE.STplot.Launcher Public
    JavaScript 0 0 0 0 Updated Mar 13, 2025
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