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Dear conchoecia,
Thank you for preparing this useful script, may I ask where could find the example input files for reproidcuing the Ribbon Diagrams you presented in the manual page?
Such as tho…
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Dear Vadim
I performed a DiaNN analysis on my MDA-MB-231 vesicular protein samples. However, at the end of the identification process, my protein group file was empty, even though I observed that it …
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Hello. I was running FoldSeek and it is only returning the top 1000 hits. I am using the command line version and not the server. I was wondering if there was a way to retrieve all hits down to the bi…
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I think it would be useful for mygene to also store information about proteins with no associated Entrez record. For example:
http://www.uniprot.org/uniprot/A2NXD2
http://www.uniprot.org/uniprot/Q5N…
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It would be very useful to add a parameter "Ontogeny like" to the proteins that would store this information:
![image](https://user-images.githubusercontent.com/25903040/233312477-7d71e7be-c823-4c5…
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### Describe the bug
I was playing a game in the LAWK mode (which means no thermosynthases or thermoplasts), and everything was fine. I was going to open a chloroplast by using thylakoids, but then…
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I need example data for this, `.tsv` and/or `.csv` is ok. What I want is something like
```
protein id ref id organism length location
JG237GF AH54452 E coli 432 9743
HBGS543 KV99S1 Pyrococcus furi…
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I think we lose the actual node sizes when we resolve errors. This can be seen in sample 2, just resolve errors, download SBGNML file and open it in Newt. All non-compound node sizes are 30 by 30.
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* pharokka version:1.4 & 1.5.1
* Python version: Python 3.10.8
* Operating System: Rocky Linux 8.7 (Green Obsidian)
### Description
Hi @gbouras13, When trying to run pharokka_proteins.py in a se…
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Hello Zaixi,
I've read your paper entitled "Full-Atom Protein Pocket Design via Iterative Refinement" and thought it was an excellent way to de novo generate protein structures given a ligand of in…