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wdecoster / nanofilt

Filtering and trimming of long read sequencing data
GNU General Public License v3.0
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Cant seem to get nanofilt to work on command line? #66

Closed DrModupeO closed 1 day ago

DrModupeO commented 5 days ago

Hi, i am currently trying to trim a fastq file i got from publicly available datasets with Nanofilt. I have the following codes:

nanofilt_script.txt

But i keep getting the error that says it cant find the module nanofilt and it is already installed. Any help you can render?

wdecoster commented 4 days ago

NanoFilt is superseded by chopper, or is there a reason you would need NanoFilt?

DrModupeO commented 4 days ago

I am working on a project and i am practicing with publicly available Nanopore dataset to create a pipeline for the sequences i am going to obtain with MinION. i decided to work with Nnaofilt as a filtering and trimming software. I am new to this , so bear with me. What do you mean by chopper?

wdecoster commented 4 days ago

Chopper is a tool that replaces NanoFilt. I posted the link in my previous answer.