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Repo for the Hisat2 indexer module which creates indices for the Hisat2Aligner module
Repo for the dockerized Hisat 2 aligner module
Docker container and module wrapper for Amaretto from the Gavaert Lab at Stanford (http://med.stanford.edu/gevaertlab/software.html)
Docker container for hisat2 module
Disease Association Protein-Protein Link Evaluator (Broad hosted algorithm)
common scripts for docker/aws batch containers used for GenePattern modules
Docker build and module artifacts for community-amaretto module
The GenePattern Server web application
A framework for creating user-friendly widgets and tools in Jupyter Notebook.
This repository contains the shared code used by the GenePattern modules.
Platform for integrating genomic analysis with Jupyter Notebooks.
This module takes in a GDC manifest file, download the files listed on that manifest, and renames them to be human-friendly.
GenePattern Notebook Website
Python implementation of Gene Set Enrichment Analysis
GenePattern Python Library
450k/EPIC methylation array based copy number variation analysis using GenePattern Notebooks.
Code used in the operation of the GenePattern Notebook Repository
A wrapper module for the myvariant.info service
Docker . module for the single cell toolkit
Docker . module for the single cell toolkit in R
Merges individial files containing HTSeq read counts into one file
Dockerfiles supporting the GenePattern Notebook environment
GenePattern Hierarchical Clustering module.
These are the GenePattern notebooks in which TCGAImporter is used to generate different datasets
GenePattern docker container for the download from gdc module