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Dear Vadim,
I have some issues with identifying high confidence proteins from SWATH data acquired on ZenoTOF 7600.
I am using fasta predicted library. The SWATH data should contain about ~100 pr…
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Running on PDB ID 1UNC of Villin https://www.rcsb.org/structure/1unc causes the following crash
The issue is that the residue is named GLU but it has a HE2 hydrogen which corresponds to a GLH residue…
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Sometimes fasta files have simple header lines, but sometimes they toss in a bunch of stuff, for example:
> Seita.9G099800.1.p pacid=32690791 transcript=Seita.9G099800.1 locus=Seita.9G099800 ID=Sei…
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Can a global median normalization be applied to the raw abundances of peptides in the output TSV prior to using MaxLFQ for protein quantification when working with DIA-NN data? I am analyzing cell lys…
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Thank you for the wonderful package.
I have plenty of transcriptome data for my species, but I do not have a protein fasta. Is it recommended to use a protein fasta from a closely related species? …
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Occasionally, FAHViewer has a glitch where a piece of the atom appears completely offset from the rest. https://fah-web.stanford.edu/projects/FAHClient/ticket/975
There's a kind of bounding box that …
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Add an option to convert DNA sequences into their protein counter parts. This can be coupled with the option of specifying which codon position is the first nucloetide and also position of introns.
A…
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Need to make multiple protein items?
https://mygene.info/v3/gene/38418
https://mygene.info/v3/gene/856015
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In this project, the main key is to find the binding site of the WDR 91 protein. In order to do this, I have decided to delete the ligand from the [8SHJ](https://www.rcsb.org/structure/8SHJ) and decid…
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I used the following commands to run DIA-NN and got the above warning:
```
nice -19 /usr/diann/1.8.2_beta_8/linux/diann-1.8.1.8 --threads 32 --mass-acc 15 --mass-acc-ms1 15 --matrices --pg-level 1…