Dear All,
I am new to GATK and very confused regarding "Read Groups". I have fastq files and I will like to add read groups to...
6 results in 0.0029 seconds.
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Understanding Read Groups for single end and paired end data
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Is read duplication the wrong metric?
My collaborator had some libraries sequenced much more deeply after the initial results seemed too shallow, but the total read counts per library were...Last edited by jwfoley; 01-19-2015, 10:53 AM. -
Proper regex to mark duplicates using Picard tools on SOLiD data
Hi,
I'm having trouble removing duplicates using Picard tools on SOLiD data. I get a regex not matching error.
The reads... -
MarkDuplicates not working on CG BAM files?
Hi everyone,
I've created some BAM files from some Complete Genomics data using their conversion script so I can run it through a GATK/Picard... -
Is picard MarkDuplicates Sample/Readgroup Aware?
As above:
Is Picards MarkDuplicates safe to run on a multisample/multilibrary bam, or will it remove all reads that map to the same position... -
MarkDuplicates: Value was put into PairInfoMap more than once.
I get this error in MarkDuplicates:
Exception in thread "main" net.sf.picard.PicardException: Value was put into PairInfoMap...
