User: zaidnab

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zaidnab0
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Posts by zaidnab

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Adding a column to a SAM File
... Hi all! I am trying to edit a Sam File. What I am trying to do is add a new column to the end. Currently, there are 12 columns, but I want to add one more, that will store more information. Is this possible? When I have tried, I have been getting a parse error when trying to convert the SAM file int ...
gene sequence alignment written 6 weeks ago by zaidnab0 • updated 6 weeks ago by Asaf4.5k
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Edit bam files using Pysam
... Hi there! I am trying to edit values in a bam file, using Pysam, or any other interface. I want to change the base quality, and the read sequence of certain reads. I have searched a ton, but have not found any methods of editing bam files directly. I am not sure if this is possible. Any help would b ...
genome alignment sequence sequencing written 9 weeks ago by zaidnab0 • updated 9 weeks ago by Devon Ryan71k
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Python script to find error rate
... I am trying to write a python script that, from a BAM files, calculates the error rate of the DNA sequencing based on the reference genome. I am brand new to bioinformatics, and I am very stuck. This is what I have so far: import pysam samfile = pysam.AlignmentFile("TruQ3_229.sorted.bam", "rb") ...
genome sequence alignment written 5 months ago by zaidnab0

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