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genepattern-server

The GenePattern Server web application

genepattern-theme-extension

genepattern-utils

A collection of Python utility functions for use with GenePattern

geoimporter

Imports data from the Gene Expression Omnibus (GEO)

gistic_2.0

Genomic Identification of Significant Targets in Cancer

github-actions-testing

Using this repo to figure out how to work with github actions

gp-jobrunner-drmaa_v1

A GenePattern JobRunner for GridEngine integration.

gp-notebook-template

A standard template repository for creating GenePattern Notebook based analyses.

gp-server-test

Temporary repository, for testing sparse checkout from private broadinstitute/genepattern into new public repo

gp.broad-landingpage

landing page to redirect users from genepattern.broadinstitute.org to cloud.genepattern.org

gparc-module-docs

an archive of gparc module docs as of 21.12.09

gpauthenticator

Sign in to JupyterHub using your GenePattern credentials

gpcloud-report

GenePattern Cloud Server Usage Report

gpnotebook-website

GenePattern Notebook Website (old)

gpnotebook-website-docs

gsea2

Module for GSEA Julia Implementation

gsealeadingedgeviewer

Leading Edge Viewer for GSEA results

hapseg

A probabilistic method to interpret bi-allelic marker data in cancer samples.

harmony

Wrapper Script for Harmony designed to work with GenePattern Module Integrator

heatmapimage

Creates a heat map from a dataset

heatmapviewer

A configurable heat map viewer that provides users with several options for manipulating and visualizing array-based data

hierarchicalclustering

GenePattern Hierarchical Clustering module.

hierarchicalclusteringimage

Creates an image of the dendrogram generated from HierarchicalClustering

hierarchicalclusteringviewer

Views results of hierarchical clustering.

hierarchicalclustering_python

Python rewrite of the hierarchical clustering module.

hisat2.aligner

Repo for the dockerized HISAT2.aligner module

hisat2.indexer

Repo for the HISAT2 .ndexer module which creates indices for the HISAT2.aligner module

htseq.count

HTSeq (0.11.2) wrapper module: Counting reads in features with 'htseq-count'

igv

Launches IGV JS with input file(s)

igv.js

GenePattern module wrapping igv.js