User: sboardman

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sboardman0
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Posts by sboardman

<prev • 5 results • page 1 of 1 • next >
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Comment: C: Illumina Platinum Genomes md5 checksums
... Brilliant, thanks so much for that. Been scratching my head comparing it to 1000 Genomes files which have the .bai and .bas with md5 in them. ...
written 5.2 years ago by sboardman0
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Illumina Platinum Genomes md5 checksums
... Hi, I've downloaded a set of bams from Illumina's Platinum Genomes experiment (hosted at EBI) and would like to do due diligence and perform a checksum check, but I can't find any published for these files. Has anyone else downloaded the bam files from ftp://ftp.sra.ebi.ac.uk/vol1/ERA172/ERA172924 ...
ebi checksum written 5.2 years ago by sboardman0 • updated 5.2 years ago by Saulius Lukauskas530
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Comment: C: Bedtools genomecov to identify regions at any coverage
... Hi Jorge, that's great. I wrote a python script to concatenate my covered regions, but this looks much more efficient. ...
written 5.6 years ago by sboardman0
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Comment: C: Bedtools genomecov to identify regions at any coverage
... Thanks Aaron, that makes sense. Knew I was missing something obvious. I'll work out another way to concatenate the covered regions so I don't have lots of sequential regions with 1 coverage. ...
written 5.6 years ago by sboardman0
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Bedtools genomecov to identify regions at any coverage
... Hi,   Is it possible to use bedtools genomecov with both -bga and -max flags? I've been trying to do this (code below), but my resulting output isn't binned. bedtools genomecov -max 1 -bga -ibam input.bam -g hg19.genome > output.bed chr1 0 554304 0 chr1 554304 554309 5 chr1 5543 ...
bedtools genomecov written 5.6 years ago by sboardman0 • updated 5.6 years ago by Jorge Amigo11k

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