Hi Sanjay,
GATKs "best practises" tutorials are a good way of getting hold of qc, SNP calling, etc.
https://software.broadinstitute.org/gatk/best-practices/
Cheers, Anna
On Jul 31, 2016, at 11:50 PM, Sanjay Gautam <sanjay.gautam@utas.edu.aumailto:sanjay.gautam@utas.edu.au> wrote:
Hi,
I am currently working on next generation sequencing platform. I will be pleased to hear if someone in the group could help me get into variant call methods (particularly SNPeff, SAMtools and bcftools platform).
Thank you
?
Sanjay Gautam, B.Sc. MLT, M.Sc. Med. Microbiology PhD Student/School of Medicine/ Breathe Well Center University of Tasmania, 17 Liverpool Street, Hobart TAS 7000,Australia M +61416181795tel:%2B61416181795 / E.mail: Sanjay.Gautam@utas.edu.aumailto:Sanjay.Gautam@utas.edu.au
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