search

biocore / mg-scripts

Knight Lab internal Metagenomic processing scripts for demultiplexing, QC and host removal
BSD 3-Clause "New" or "Revised" License
1 stars 5 forks source link

Handle 2-color chemistry outputs (add polyG filtering) #5

Closed ElDeveloper closed 11 months ago

ElDeveloper commented 4 years ago

The initial atropos command call (we are very close to determine what this will be) will need to change for 2-color chemistry runs.

charles-cowart commented 11 months ago

polyG filtering could be set in the [Bioinformatics] section of a sample-sheet, but I believe that we're already past that now. The only current QCing I know of is human sequence filtering and adapter trimming.

This issue appears resolved with the migration to the SPP codebase.