User: Tryingtogetthere

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180
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http://yahoo.com
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8 years, 5 months ago
Joined:
8 years, 6 months ago
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j************@unmc.edu

Posts by Tryingtogetthere

<prev • 5 results • page 1 of 1 • next >
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Gatk Depthofcoverage Walker Output
... I ran the DepthOfCoverage walker with an exome bam file and supplyed it an exome bed file. In the output from the walker there is a file called *.samplestatistics. There are basically two rows one with Sourceofreads from0to1) from1to2) from2to3) and underneath it a 58835288 884725 14 ...
gatk written 8.5 years ago by Tryingtogetthere180
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Merging Bam Files
... I have five exomes(in bam format), each a different sample, that I would like to merge into one bam. None of the bam have @RG's in the headers, I am assuming I must add this information first? I also assume this is how I can pull apart the variant information after I processes it with GATK? The Pica ...
picard samtools written 8.5 years ago by Tryingtogetthere180 • updated 13 months ago by abhijit.synl50
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Comment: C: Understanding Vcf File Format
... Also why are the two genotype quality values thanks ...
written 8.6 years ago by Tryingtogetthere180
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Comment: C: Understanding Vcf File Format
... Thanks for the link but I have been there also. That for the AD definition. I understand that PL is phred-scaled genotype likelihood but why are there three values? Thanks ...
written 8.6 years ago by Tryingtogetthere180
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Understanding Vcf File Format
... let me start by saying I've spent hours at the http://vcftools.sourceforge.net/specs.html but I still don't understand some of the vcf fields. For example, In the following record I dont understand some of the GT:AD:DP:GQ:PL information chr1 897723 rs6696911 C T 453.42 PASS AC ...
vcf format written 8.6 years ago by Tryingtogetthere180 • updated 8.3 years ago by Jorge Amigo11k

Latest awards to Tryingtogetthere

Popular Question 8.5 years ago, created a question with more than 1,000 views. For Merging Bam Files
Popular Question 8.6 years ago, created a question with more than 1,000 views. For Understanding Vcf File Format
Student 8.6 years ago, asked a question with at least 3 up-votes. For Understanding Vcf File Format

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