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Failed sequences do not have consensus tex #115

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jdeck88 opened this issue Mar 14, 2020 · 0 comments
Open

Failed sequences do not have consensus tex #115

jdeck88 opened this issue Mar 14, 2020 · 0 comments

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@jdeck88
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jdeck88 commented Mar 14, 2020

So - here’s what I want to be able to do - First is an image of an alignment of contains that we can identify and bacteria (these are sequences that are NOT the target species intended - sponge, tunicate, snail, etc.).

I want to be able to selected them in the alignment and click mark as fail and put bacterial contamination in the reason details as below - which I would assume would write the actual nulceotide string to the database (like it would for a passed sequence), but in this case it would be marked as failed.
Then I want to be able to conduct a query as below for failed sequences based on some other metadata - like here I just searched for failed sequences from Plate PKOU_01 - but when I click on the material sampleID that was failed as a bacterial contamination - there is no sequence associated with it (see black Sequence view at bottom)

versus passed sequences that have a sequence associated with it:

I need to be able to download the failed sequences across the project or groups (that other people have passed or failed using their local client in order to look across the bacterial contaminants to design primers, use as bacterial references, etc (I don’t want to pass these sequences because they are the wrong target

Hope that makes sense …

I’m almost certain that this used to work like this, but doesn’t seem to anymore

Cheers
-c

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