NGeneBio Genomics Platform

civicmine

Text mining cancer biomarkers for the CIVIC database

diagnostics_exome_reporting

Pipeline to filter whole exome vcf files and generate a report document for clinical diagnostics.

g3viz

Lollipop-diagram to interactively visualize genetic mutations

hgvs

HGVS variant name parsing and generation

mkdocs-ngenebio

A Material Design theme for MkDocs

oliver

An opinionated Cromwell orchestration manager.

pcgr

Personal Cancer Genome Reporter (PCGR)

react-mutation-plot

A light weight adaptation React based mutation lollipop plot from cBioPortal frontend.

rest_variantValidator

REST Interface for VariantValidator. Includes docker container

sjcloud-data-transfer-app

Application to securely upload data to and download data from St. Jude Cloud Platform.

variantFormatter

vv_hgvs

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

wdldoc

Create WDL documentation using Markdown.

workflows

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

variantValidator

Public repository for VariantValidator project

WES_ShinyDiscover

A Shiny interface to filter and identify variants of interest from whole exome data