User: Badh2

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Badh20
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Posts by Badh2

<prev • 5 results • page 1 of 1 • next >
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Comment: C: BAM file doesn't show the altered sample identifier
... Alrighty,,, I'll try that. Thanks again!! ...
written 5 weeks ago by Badh20
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Comment: C: BAM file doesn't show the altered sample identifier
... Hi finswimmer, Thanks for trying to help. May be my question is not clear. Anyways, I don't have different samples in one fastq file. I got demultiplexed fastq files for each sample so I didn't have to demultiplex it myself. But when I assembled all the samples together using Bowtie2 and visualize ...
written 6 weeks ago by Badh20 • updated 6 weeks ago by finswimmer8.1k
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BAM file doesn't show the altered sample identifier
... Hi All, I used the following python script to add sample identifier (S1R1, S1R2, S2R1, S2R2 etc) based on the adaptor combination. It did add the sample name as I needed but when I used the output files in Bowtie to get bam files, the sample identifier at the end doesn’t show up. (I used Geneious an ...
fastq bam written 6 weeks ago by Badh20 • updated 6 weeks ago by finswimmer8.1k
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Comment: A: Extracting specific regions from a bam file and exporting them to do a phylogene
... Hi finswimmer, Thanks for your suggestion. I just read about BEDtool ans seems like that has an option to do my task. I'll try and see. Thanks! ...
written 6 weeks ago by Badh20
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Extracting specific regions from a bam file and exporting them to do a phylogenetic analysis
... Hi all, I’m new to bioinformatics and coding. Therefore, any help to do the following tasks is appreciated. I have a bam file I got from running samtools for 8 samples. I viewed them in IGV and Geneious. I want to use these alignments for a phylogenetic analysis but for that I need to extract only ...
phylogenetic fasta bam samtools geneious written 6 weeks ago by Badh20

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