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cjprybol / Mycelia

MIT License
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Try dib-lab classification tools #175

Closed cjprybol closed 5 months ago

cjprybol commented 11 months ago

Grist would be good to try for long read and/or contig classification

https://dib-lab.github.io/genome-grist/output-guide/

I'll need to build my own refseq database, but that shouldn't be too bad - I have the scripts for doing that download

Can also use the underlying commands sourmash gather and sourmash tax

cjprybol commented 5 months ago

The kmer analysis step at the beginning of this pipeline is single threaded, and I found this to be runtime prohibitive for the use cases I was looking to use it for. I found a GitHub issue confirming the fact and discontinued my efforts with these workflows