Decontamination pipeline speedup
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tbrown91 commented
Potentially change mapper from blast to diamond. Blast step in blobtools is prohibitively slow for large genomes. An alternative would be to use a reduced database. Need to search for an "nt-lite" like the uniprot 50/90/100 libraries, if they exist
tbrown91 commented
Switched to fcs-gx. I will also remove the blobtools element until the developers have incorporated the output of fcs-gx into their workflow