search

shiquan / PISA

A collection of tools to process single-cell omics datasets.
MIT License
40 stars 8 forks source link

PISA parse length #12

Closed lishuangshuang0616 closed 6 months ago

lishuangshuang0616 commented 6 months ago

Thank you very much for your PISA.

Could PISA parse be adapted to handle variable lengths, such as obtaining the entire R2 segment, which could be either 100 or 150 bases long, without needing to change the JSON file each time? PISA parse2 can be adjusted well, but it cannot output quality values.

Best wishes.

shiquan commented 6 months ago

In the new release, I will use parse2 to replace parse. Do you think any downstream tools will use the quality scores?

lishuangshuang0616 commented 6 months ago

Just need the quality score to be displayed in html report.

shiquan commented 6 months ago

It may not be necessary to retain this information, as the quality score of reads sufficiently reflects the sequencing quality.