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Forum: Literature Watch 05-12-2015, 08:24 PM
Replies: 41
Views: 36,854
Posted By wisekh
using a mapping quality threshold

Dear Eric,
I have another question. Is it possible to use a mapping quality threshold to, for example, a tumor bam or multiple tumor bams that I would infer copy number from?

thank you,

Hoon
Forum: Literature Watch 05-11-2015, 09:08 PM
Replies: 41
Views: 36,854
Posted By wisekh
I got it. Thank you very much for your quick...

I got it. Thank you very much for your quick response.

hoon
Forum: Literature Watch 05-11-2015, 02:33 PM
Replies: 41
Views: 36,854
Posted By wisekh
calling LOH from a pair of tumor and normal exome bams

Dear Eric,

I wonder if you can provide an instruction/example on how to generate LOH calls from a pair of tumor and normal exom bams.
I assume this tool can generate them, but I couldn't find a...
Forum: Bioinformatics 12-12-2011, 08:27 AM
Replies: 0
Views: 3,283
Posted By wisekh
ReorderSam.jar in picard and GATK

Dear community members,

I have tried to reorder several exome-sequencing bam files with "ReorderSam.jar," which is in the most recent version of picard, on Hg18 reference sequence. A weird thing...
Forum: Introductions 12-12-2011, 08:16 AM
Replies: 0
Views: 957
Posted By wisekh
hello

Hi everyone,

I am new to NGS and hoping to learn a lot from SEQanswers

Thank you
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