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Dear Vadim,
I analysed thermo raw files with DIA-NN 1.8.1 and 1.9. I matched the generated pg_matrix and pr_matrix to find the number of proteotypic peptides for each reported protein in the pg_matri…
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I was wondering whether it would be possible to use this tool to predict toxicity of peptides that contain unnatural amino acids.
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I am encountering an issue with software v.1.0.2. It reports that 25 identified peptides were assigned to a protein, 4 of which are unique. I expected to see which peptides are shared and which are un…
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Dear developers:
Hi!
I am trying to run MixMHC2pred on some datasets consisting of MS eluted ligands. However, some peptides yielded no results, only a row of NA. This is strange becaus…
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Hi All,
I'm working on this project where I add light and heavy-labeled peptides together, mix them and run on an Orbitrap, using LC-DIA.
Interestingly, when I create my own peptide library usi…
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When I tested different peptides, no matter how long the peptides are, I always get intermaps started from the 16th residue. The first 15aa of seq1 and seq2 are missing. Is it due to the window size? …
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Hello Fragpipe team,
I am analyzing histone peptides which are decorated with many PTMs. Usually the analysis is done in skyline, but I would like to try this out with a search engine for DIA data.…
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Once
https://github.com/pombase/pombase-chado/issues/1195
done, compare
signalP (
Phobius (could use the InterPRoAPI for this)
DeepSig?
and decide thresholds to use to get best coverage. …
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Hello, have the designed peptides been synthesized and subsequently verified through wet lab experiments? What were the results?
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### Description of feature
An idea for downstream visualisation of comparison between conditions:
Waterfall plot of unique peptides between 2 conditions, with overlapping peptides (non unique). …