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Add fishbase #172

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jar398 opened this issue Oct 22, 2015 · 3 comments
Open

Add fishbase #172

jar398 opened this issue Oct 22, 2015 · 3 comments

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@jar398
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jar398 commented Oct 22, 2015

OpenTreeOfLife/feedback#127
OpenTreeOfLife/feedback#126
and others

@pmidford
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Oops, I misspoke - Phenoscape used Catalog of Fishes for its initial taxonomy, not Fishbase. However, the Fishbase taxonomy follows CoF very closely (much closer than NCBI), so the difference may not amount to much.

@jar398
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jar398 commented Jul 6, 2016

@jar398
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jar398 commented Dec 7, 2017

The following from Laura Jackson is important enough that I'm going to copy it from phenoscape/KB-DataFest-2017#12 (comment) :

Yes, FishBase incorporates CoF although uses an outdated 2014 version. Since FishBase reports more than just taxonomic information, it doesn’t frequently get updated with newly described species that would be in CoF causing differences in species count (e.g., teleost species in FishBase: 32,1216 and current CoF: 33,191). But, currently this is the only way you can get a list of CoF species, without being able to get it directly from the CoF database. They don’t have an option to download, and I also contacted Bill Eschmeyer (curator of FishBase), who told me that I could not get a list of species. Therefore, FishBase would be the only viable proxy for species from CoF, unless the downloadable option is implemented in CoF.

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