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A collection of Dockerfiles to facilitate reproducibility across computing environments.
A bioinformatics pipeline for rapidly evaluating variants and identifying causal variants.
Source files for DNAnexus applets
Repository for the CWL standards. Use https://www.biostars.org/t/cwl/ for support 😊
DNAnexus app mapping FASTQ reads (paired or unpaired) to a reference genome with the BWA-MEM algorithm
DNAnexus app for uploading samples to the Congenica analysis platform
DNAnexus implementation of duty_csv. To be used in conjunction with process_duty_csv
This app calculates the readcount for a batch of samples for CNV calling using ExomeDepth.
DNAnexus app running MultiQC to generate run wide quality control (QC) using the outputs from MokaAMP, MokaPipe and MokaWES pipelines
The app creates a panel of normals for Exomedepth
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
Software suite for updating and managing data on DNAnexus
Command-line tool to automatically build workflows on DNAnexus