WDL and CWL compiler for the DNAnexus platform

A collection of Dockerfiles to facilitate reproducibility across computing environments.

Python script to monitor archiving on DNANexus

Source files for DNAnexus applets

DNAnexus app of Athena

A bioinformatics pipeline for rapidly evaluating variants and identifying causal variants.

Performs CNV calling using ExomeDepth.

App to upload TSO500 samples to Qiagen

Repository for the CWL standards. Use https://www.biostars.org/t/cwl/ for support 😊

DNAnexus app running peddy v0.3.1 (https://github.com/brentp/peddy) to perform a run wide QC check that the assigned gender matches the sample

The app creates a panel of normals for Exomedepth

DNAnexus app mapping FASTQ reads (paired or unpaired) to a reference genome with the BWA-MEM algorithm

DNAnexus app generating a QC report on reads data

Command-line tool to automatically build workflows on DNAnexus

DNAnexus implementation of duty_csv. To be used in conjunction with process_duty_csv

Software suite for updating and managing data on DNAnexus

DNAnexus app running MultiQC to generate run wide quality control (QC) using the outputs from MokaAMP, MokaPipe and MokaWES pipelines

App to upload multiqc files to genomics server

DNAnexus app for uploading samples to the Congenica analysis platform

OmniAuth Strategy for DNAnexus