St. Jude Cloud

oliver

An opinionated Cromwell orchestration manager.

workflows

Bioinformatics workflows developed for and used on the St. Jude Cloud project.

wdldoc

Create WDL documentation using Markdown.

ngsderive

Forensic analysis tool useful in backwards computing information from next-generation sequencing data.

docs

Documentation on St. Jude Cloud.

university

Educational materials for the St. Jude Cloud project.

bioinformatics-tool-template

expression-classification

mtsg

Find and quantify COSMIC mutational signatures across samples

cloud-app-tutorial

Cloud application examples for St. Jude Cloud.

merge-counts

Utility for merging RNA-seq expression counts files from St. Jude Cloud.

theme

Component library and CSS themes for applications on the St. Jude Cloud project.

cde-transformers

TODO

cgc-go

dapr-php-sdk

Dapr SDK for PHP

dx-build_visualizer

dx-coverage_bw

dx-fuzzion

DNAnexus implementation of Fuzzion (https://github.com/stjude/fuzzion)

dx-manta

dx-rapid_rnaseq

dx-rnapeg

dx-rnaseq_standard

Monolithic DNAnexus implementation of RNA-Seq V2 pipeline with miniwdl

dx-STAR

DNAnexus app wrapper for STAR alignment

dx-tag_outputs

mkdocs-stjudecloud

A Material Design theme for MkDocs

msgenctl

CLI to manage Microsoft Genomics workflows

release-python-action

Github Action to release a Poetry-based Python app as we regularly do on the St. Jude Cloud project.

rfcs

Request for Comments (RFCs) on the St. Jude Cloud Project.

stjude_htseq_count

utilities

Utility scripts created for and used on the St. Jude Cloud team.