Annotation gtf file for GATK?

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michael.sharpnack

Junior Member

Join Date: Jun 2014

Posts: 1
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#1

Annotation gtf file for GATK?

08-21-2014, 10:52 AM

Hi all,

I am using the RNA-seq best practices protocol from Broad to analyse my data. The reference genome that I used is the human_g1k_v37.fasta file available from Broad's public server. I need a .gtf file (genes and/or exons) for annotation and use in featureCounts and IGV. Does anyone know where I can find the correct annotation file for my reference genome?

Thank you.
Tags: annotation, featurecounts, gatk, gtf, rna-seq
shi

Wei Shi

Join Date: Feb 2010

Posts: 236
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#2

08-21-2014, 02:36 PM

Annotation for human genome GRCh37 is available in featureCounts.
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