User: mark.fleharty

gravatar for mark.fleharty
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4 years, 2 months ago
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4 years, 5 months ago
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Posts by mark.fleharty

<prev • 4 results • page 1 of 1 • next >
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Genomes in a Bottle for GRCh38
... Is there a VCF file containing the GIAB sites available that are mapped to assembly GRCh38? ...
giab genomes in a bottle grch38 written 4.2 years ago by mark.fleharty30 • updated 4.2 years ago by Brad Chapman9.4k
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Answer: A: How can you convert a GATK interval_list file into a BED file
... It appears that Picard has a tool to do the opposite of what I'd like to do. http://broadinstitute.github.io/picard/command-line-overview.html#BedToIntervalList   ...
written 4.3 years ago by mark.fleharty30
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How can you convert a GATK interval_list file into a BED file
... I'm trying to convert an interval list into a BED file, any ideas on how to do it?   Thanks,   Mark ...
gatk sequence interval_list bed written 4.3 years ago by mark.fleharty30 • updated 4.3 years ago by Zaag720
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Removing the OQ tag from a BAM file
... Hello, I'd like to remove a tag (not a read) from a BAM file.  I would like to remove the OQ tag that keeps original qualities after running BQSR.  Any suggestions on how I might do this? Thanks, Mark   ...
gatk picard samtools written 4.5 years ago by mark.fleharty30 • updated 4.5 years ago by Pierre Lindenbaum123k

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