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over in https://github.com/spacegraphcats/spacegraphcats/issues/437#issuecomment-969471862, @taylorreiter sez:
>I've been using #379 to assess the accuracy of #444 (or really, just protein searches…
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Reem from Georgetown University has N-glycosylation data for Sulf1 (ID: Q8IWU6) and Sulf2 (Id: Q8IWU5) proteins from paper N-glycosylation occupancy of Sulf2 in an over-expression system (PMID: 370524…
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First copy [this file](https://github.com/PNNL-CompBio/p3/blob/main/functional/calculate-functional-enrichment.Rmd) to this repo. Then we can run the three tests on the protein data (syn25706561) and …
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Hi Matt,
A girl in my lab is trying to set up ITEP with some bacterial genomes. She ran into an issue: convertGenbank2table.py fails because some of here genbank files (downloaded from RAST) have join…
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Hi,
Thanks for putting together this wonderful resource. I've run reCOGnizer before and I am now experiencing an issue with the pipeline suggesting my fasta file has empty queries. I've troubleshoo…
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A FileNotFoundError: [Errno 2] No such file or directory: error occurs. This error appears when inputting long sequences or complex structures into the contigs. When generating proteins with simple st…
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**Description**
**Sub-lineage of:** KP.2.3
**Earliest sequence:** 2024-5-7, Italy — EPI_ISL_19198507
**Most recent sequence:** 2024-6-28, USA, California — EPI_ISL_19242617
**Continents circulatin…
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The histidine kinases of E. coli two-component systems are inner membrane proteins. They often contain a large periplasmic domain for sensing an external signal and they always contain cytoplasmic dom…
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# Not-proteins in Parliament - Clare's Blog
My experience as a POST Fellow
[https://clarewest.github.io/blog/post/not-proteins-in-parliament/](https://clarewest.github.io/blog/post/not-proteins-in-p…
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I will likely not implement it in #41 where I planned to because the PR is already enormous. So I write it down here.
We need to support secondary structures for cyclic proteins. Some thought were …