Bug Bulletin: we have identified a bug that affects indexing when producing gzipped VCFs. This will be fixed in the upcoming 3.2 release; in the meantime you need to reindex gzipped VCFs using Tabix.

MergeDiscoveryOutput

Geraldine_VdAuweraGeraldine_VdAuwera Posts: 5,235Administrator, GSA Member admin
edited September 2012 in GenomeSTRiP Documentation

1. Introduction

The MergeDiscoveryOutput utility merges the results of a parallel discovery run into genome-wide output files.

In addition to merging the main VCF files, this utility will also merge the auxilliary output files (but leave them in the run directory).

2. Inputs / Arguments

  • -runDirectory <directory> : The run directory where the output files from each partition are stored.

3. Outputs

  • -O <vcf-file> : The location to write the merged output VCF file.
Post edited by Geraldine_VdAuwera on

Geraldine Van der Auwera, PhD

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