Question: removing chloroplast sequence from FASTQ files
0
gravatar for Ric
4.0 years ago by
Ric300
Australia
Ric300 wrote:

Hi, I have paired-end WGS FASTQ files and chloroplast genome. How is it possible to remove chloroplast sequences from the FASTQ files?

Thank you in advance.

Mic

fastq assembly • 1.7k views
ADD COMMENTlink written 4.0 years ago by Ric300
1
gravatar for genomax
4.0 years ago by
genomax87k
United States
genomax87k wrote:

Use BBSplit from BBMap to bin the reads (chloro and non-chloro) as noted here: BBSplit syntax for generating builds for the reference genome and how to call different builds.

ADD COMMENTlink modified 4.0 years ago • written 4.0 years ago by genomax87k
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