Comments (3)
xapple
commented on July 21, 2024
To classify COI sequences, it is recommended to use the midori253darn database which effectively replaces the old bold database.
https://www.reference-midori.info/index.html
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xapple
commented on July 21, 2024
As opposed to BOLD, Midori also has some bacterial sequences, but these are for removing non-target amplification of mitochondrial COI analogs in bacteria. It also has more protist and algae sequences than BOLD and is more inclusive, though possibly less taxonomically revised for some branches. Overall, the benefits outweigh BOLD that was based on an earlier version and it was possibly not allowed to re-distribute as we used to do, due to some license issues.
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Enorya
commented on July 21, 2024
Thank you for your quick reply!
I will use the Midori database.
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Related Issues (8)
- Crest4 runtime and memory requirement HOT 6
- CREST4 produces empty assignment.txt file HOT 6
- error with midori database access HOT 6
- Classification thresholds for ranks above phylum level HOT 2
- BiopythonDeprecationWarning HOT 1
- error for COI assignments HOT 4
- error in 16S assignment after update to crest 4.3.7 HOT 9
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