User: Noam Teyssier

gravatar for Noam Teyssier
Reputation:
70
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New User
Location:
San Francisco
Last seen:
5 days, 11 hours ago
Joined:
1 year, 3 months ago
Email:
n**********@gmail.com

Posts by Noam Teyssier

<prev • 6 results • page 1 of 1 • next >
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Comment: C: Passing a file to sed to remove all lines that match +1 in file B from file A
... https://stackoverflow.com/a/19770395/8767800 May help out. ...
written 6 months ago by Noam Teyssier70
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Answer: A: Passing a file to sed to remove all lines that match +1 in file B from file A
... You can try an fgrep approach which works fairly well ``` fgrep -v -f file_b.fa file_a.fa > filtered.fa ``` ...
written 6 months ago by Noam Teyssier70
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Answer: A: What is differential abundance analysis?
... I believe what they're referring to is the relative change in genome abundances between samples where the genome distributions change relative to time. The pattern they're referring to would be the common distribution shift between samples, which would allow clustering of samples based on their comm ...
written 7 months ago by Noam Teyssier70
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Clarification on Bedtools Intersect Usage
... So I am recently getting my foot in the door in using bedtools and I had a question about correct usage for my end goal I am looking to essentially filter a BAM file for reads that only have 100% intersection on regions specified with a bed file. [====================BAM===================] ...
bedtools intersect samtools mpileup bam written 15 months ago by Noam Teyssier70 • updated 15 months ago by Kevin Blighe45k
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Comment: C: Does samtools view only show reads that completely span the region?
... Hey h.mon, bedtools is definitely the way to go, I ended up using bedtools coverage -f 1.0 -a intervals.bed -b file.bam -counts -e Thanks for the help! ...
written 15 months ago by Noam Teyssier70
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Does samtools view only show reads that completely span the region?
... I've got a bam file of paired-end illumina sequences mapped to a reference sequence and I was wondering if when I call the samtools view command if the results represent only reads that completely span over the region of interest or if it also included reads that intersect it by one or two base pair ...
assembly next-gen samtools alignment written 15 months ago by Noam Teyssier70 • updated 15 months ago by h.mon26k

Latest awards to Noam Teyssier

Scholar 6 months ago, created an answer that has been accepted. For A: What is differential abundance analysis?
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: What is differential abundance analysis?

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