ClinQC Wiki

ClinQC: A tool for quality control of Sanger and NGS data in clinic

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Step1.1: Download and install the Virtual Box from http://www.oracle.com/technetwork/server-storage/virtualbox/downloads/index.html#vbox

Step1.2: After installation of Virtual Box download and install the Virtual Box Extension Pack from http://www.oracle.com/technetwork/server-storage/virtualbox/downloads/index.html#extpack

Step2: Download ClinQC Virtual machine from https://sourceforge.net/p/clinqc/wiki/Virtual_Machine

Step3: Import ClinQC Virtual Machine file into Virtual Box.

Step4: Login into ClinQC Virtual machine with username and password = testuser

Step5: Open terminal and change to ClinQC_v1.1 directory with following command on terminal:

cd ~/ClinQC_v1.1

Step6: Run ClinQC pipeline with following command on terminal:

sh ./run_clinqc.sh

Step7: To run ClinQC pipeline with other data sets, prepare the Target file and ClinQCOption file and run the ClinQC pipeline.