User: Beeta Masoumi

gravatar for Beeta Masoumi
Reputation:
30
Status:
New User
Location:
United States
Last seen:
1 month, 4 weeks ago
Joined:
3 months ago
Email:
b************@gmail.com

Posts by Beeta Masoumi

<prev • 3 results • page 1 of 1 • next >
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Answer: A: AddOrReplaceReadGroups errors with BWA-MEM input
... Thanks so much, Jen! Yes, I believe I got the error because: 1- I didn't set the Read Group Identifier in BWA-MEM tool **AND** 2- I didn't set ID SM LB PU in AddOrReplaceReadGroup. Previously I left SM and PU blank/auto-assign hence got the error. Now everything is working fine! Many thanks, Be ...
written 3 months ago by Beeta Masoumi30
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Answer: A: AddOrReplaceReadGroups errors with BWA-MEM input
... I figured it, and I thought I should add the answer here in case someone else bumps into the same issue: In BWA-MEM tool you should set the Read Group Identifier so that later you would be able to merge the BAM files. Cheers, Beeta ...
written 3 months ago by Beeta Masoumi30
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AddOrReplaceReadGroups errors with BWA-MEM input
... Hello, I appreciate if someone can help me figure out why I get this error. Could not display BAM file, error was:file has no sequences defined (mode='rb') - is it SAM/BAM format? Consider opening with check_sq=False Here are the steps so far: 1. uploaded and checked the quality of 3 FASTQ s ...
bam galaxy sam format bwa-mem written 3 months ago by Beeta Masoumi30

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