I am trying to include the nanoplot in a nextflow pipeline. For one of the steps in the pipeline, I am using seaborn but the code requires latest version of seaborn and nanoplot is throwing error because of the seaborn version.
I was wondering if there is a way to just output the raw data without calling the plotting libraries (which might throw the error).
If there is no way without downgrading seaborn version - if possible, can you please point me to a starting point (which libraries to use to extract info from bam files)? I am currently playing with pysam and see if I can use to extract info.
I am trying to include the nanoplot in a nextflow pipeline. For one of the steps in the pipeline, I am using seaborn but the code requires latest version of seaborn and nanoplot is throwing error because of the seaborn version.
I was wondering if there is a way to just output the raw data without calling the plotting libraries (which might throw the error).
If there is no way without downgrading seaborn version - if possible, can you please point me to a starting point (which libraries to use to extract info from bam files)? I am currently playing with pysam and see if I can use to extract info.
Thank you.