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my command:
java -jar /share/liuqi/ganyuli/proteome/software/PDV-1.7.4/PDV-1.7.4.jar \
-r combined \
-rt 5 \
-s . \
-st 1 \
-i tab2.txt \
-k s \
-o output \
-a 0.5 \
-c 5 \
-pw 1 \
-fw 800…
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I have discovered some code that may be using ProtParam service (package org.biojava.nbio.aaproperties?). Any tutorial for using the package to achieve similar functionality to ProtParam, say, get ami…
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Hi!
There's no term for N-methylated valine residues currently; this would be useful to describe some peptides such as *omphalotin A*, which contains MeVal residues:
![image](https://user-images…
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We need to include in PÍA a phosphorylation localización score and FDR .
I see so far two popular scores A-score and PhosphoRS for the localisation score. I will provide some code.
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MGCCGCGSCGCSGG\***GGGCGGGCGGGCGSCTTCR**CYRVGCCSSCCPCCRGCCGGCCSTPV
MGCCGCGSCGGCGGRCGGGCGGGCSGGCGGGCGGGCGGGCGSCTTCRCYRVGCCSSCCPC
MGCCGCGSCGGCGGGCGGCGGGCGGGCGGGCGSCTTCRCYRVGCCSSCCPCCRGCCGGCC
Comet i…
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Hello @RalfG,
First thanks very much for developing such wonderful tool, I really enjoyed working with it!
I have a question regarding how to apply MS2rescore to bruker (.d) or broadly speaking,…
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Clear example is available at https://gpcrdb.org/interaction/4XT1
The issue is that in the extracted pocket residues PDB there are errors in the "CONECT" records resulting in long and wrong bonds:
!…
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Hi, I am trying to use this software to analyze my MS data. But I'm not sure if the calculation is finished, especially since none of the biotype related results are output.
Here are my input,
BA…
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```
What steps will reproduce the problem?
1. Serialize somthing containing a NaN Double Value
2. Deserialize it
Exception in thread "main" java.io.IOException: Expected token: null
Last read:
Pepti…