agalitsyna

Currently, not all lib modules should be considered user-exposable APIs. Only io/header, scaling, and stats can be helpful when accessed from Python. Maybe we can document them; I agree! If...

For strand column, pd.NA here should actually '.' according to the bioframe specs: https://bioframe.readthedocs.io/en/latest/guide-specifications.html This does not change the logic for some unknown columns, though

@sergpolly Is it still relevant? Seems like we are okay with current version, which is an input to multiqc. Changing the pairs standards will need to modify multiqc as well.

GFF/GTF reader proposal Usually parsing gff/gtf files is painful because of the "attributes" column that is a key-value dictionary stored as string. I do not see a simple option to...

Ah, I did not notice that one. The disadvantage of this one is that it's not generalized and cannot be simply customized if there are no spaces in the annotation...

I was unable to parse some public gtf files with it, only custom solution worked.