User: teresayahu

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teresayahu0
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Posts by teresayahu

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Comment: A: samtools mpileup error
... Thanks! both the bam and reference files are using the '1'. Is there a way that I can change bam notation from '1' to 'chr1'? ...
written 3 days ago by teresayahu0
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samtools mpileup error
... I am using samtools function mpileup to get reads in sites. The command I used is: samtools mpileup -l hg19.position -f hg19.fa -Q 20 -q 20 -I file.bam in the command, hg19.position is position-based site file. When running these is an error printed on screen: ... [E::faidx_fetch_seq] The s ...
software error assembly next-gen sequence written 3 days ago by teresayahu0
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Comment: C: How to retrieve hard clipped reads
... Exactly. I don't have the fastq files and only have bam file. ...
written 13 days ago by teresayahu0
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How to retrieve hard clipped reads
... Hi, Is there a way to retrieve the part of reads that has been hard clipped and discarded in bam files? Thanks! ...
alignment written 13 days ago by teresayahu0 • updated 13 days ago by d-cameron850

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