User: tantrev

gravatar for tantrev
tantrev30
Reputation:
30
Status:
New User
Location:
United States
Last seen:
1 year, 7 months ago
Joined:
4 years, 9 months ago
Email:
t******@gmail.com

Posts by tantrev

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Extract unphased genotypes from vcf file and convert to 012 matrix
... :) Is there any way to make the script above allele-specific? I'd love to see the exact same output, just with an individual comparison to each potential homozygous A,T,C, & G allele - instead of just the reference allele. ...
written 3.3 years ago by tantrev30
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Comment: C: Extract unphased genotypes from vcf file and convert to 012 matrix
... It's cool, I figured out how to print the names with the example VCF script on the bioalcidae homepage. :) On a different note, though, I think there's a typo in the script above - I believe the "g.isHomRef()" clause should print a 0, not a 1, and vice-versa with the "g.isHet() && !g.isHetN ...
written 3.3 years ago by tantrev30
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Comment: C: Extract unphased genotypes from vcf file and convert to 012 matrix
... Is there any simple way to modify the script to print sample names at the top of the output? ...
written 3.3 years ago by tantrev30
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Comment: C: How To Remove The Same Sequences In The Fasta Files?
... Great find! Only tool that I could find that works with amino acids. ...
written 3.4 years ago by tantrev30
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Comment: C: Cheat Sheet For One-Based Vs Zero-Based Coordinate Systems
... Just thought I'd add that the UCSC browser is [1-based][1], while its tools are 0-based. [1]: https://genome.ucsc.edu/FAQ/FAQtracks.html#tracks1 ...
written 3.8 years ago by tantrev30
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Runtime parameters request: average read/write speed & average total run time
... Just a simple request for adding three new parameters to the CWL runtime section: a tool's average read/write speed and its average total run time. All three parameters could be used to help optimize workflow execution. ...
common workflow language cwl written 3.8 years ago by tantrev30
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Comment: C: Hg19 regions for Intergenic, Promoters, Enhancer, Exon, Intron, 5-UTR, 3-UTR and
... I, too, would also like to know how enhancers were defined. ...
written 4.3 years ago by tantrev30
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Comment: C: Piping With Samtools, Bwa And Bedtools
... I think there may be a typo in the piping example, where "samtools sort - - | \" should be "samtools sort - | \". Thanks for the great write-up. Cheers! ...
written 4.4 years ago by tantrev30

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Supporter 3.8 years ago, voted at least 25 times.

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