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fish546-2021 / Sam-Metabarcoding

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forward/reverse read format, blastn + metabarcoding #3

Closed jdduprey closed 3 years ago

jdduprey commented 3 years ago

Was your bat sequence data already divided into forward and reverse reads, or did you have a pipeline step to sort it? I was also wondering what resources you read/found about using blastn for betabarcoding.

The comments on your code are very helpful/clear, I'm going to aspire to bring my code comments to this level.

skreling commented 3 years ago

The bat data was already split into forward and reverse reads when I downloaded it. As far as resources, I didn't find a whole lot of specific things, but I found the general manual to be more helpful than the -help argument with different commands https://www.ncbi.nlm.nih.gov/books/NBK279690/#CmdLineAppsManual.Quick_start. blastn works really similarly to blastx (I think?) so if you can find tutorials on that that would probably be useful!