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Using GATK Best Practices
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Hi,
I am processing 550 files from a Q-Exactive lipidomics experiment where data dependent MS/MS data was collected. I only want to use the MS1 data to generate a peak area data matrix. I have conv…
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It appears that the node normalizer cannot currently handle CUI's like `CUI:C0017601` (Glaucoma)
eg.
```
curl -X GET "https://nodenormalization-sri.renci.org/get_normalized_nodes?curie=CUI%3AC001…
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```
e.g. has_integral_part , transformation_of
have no instance level equivalents.
Seems that class/class relations are more macro like than instance level. They
all expand into quite
different s…
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This goes to our best practice guide.
@sbello from MGI asked in slack:
> How broad is too broad? To put that another way where is the line where you decide that there is no mapped term.
I'm fi…
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I noticed two small inconsistencies:
1. In this [test file](https://github.com/MatchmakerExchange/mme-apis/blob/master/testing/test.json#L102) there's a field called **hgvs** which is not defined in t…
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Hey phenotypic! First, fantastic application and writeup. Getting the script setup and ready to run was a breeze, following your guide.
However, it appears with the new MacOS Sonoma, the airport u…
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in particular, make _sure_ the first column of `pData` uniquely identifies replicates, or remove that requirement from (e.g.) `subset`.
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Posted here!
https://taylorreiter.github.io/2022-07-28-From-raw-metagenome-reads-to-phyloseq-taxonomy-table-using-sourmash-gather-and-sourmash-taxonomy/