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ammaraziz / ctgap

Chlamydia trachomatis Genome Assembly Pipeline

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Closed gokeson closed 8 months ago

gokeson commented 8 months ago

at some point, we may want to

[ ] reconfigure scrubby to keep chlamydia reads only
[ ] remove bbnorm as shovill can downsample
[ ] collate all assembled genomes, genotype and coverage outputs into a folder each when working with multiple samples.

ammaraziz commented 8 months ago

Combined with #2