DiaNN
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vdemichev
DIA-NN - a universal automated software suite for DIA proteomics data analysis.
Hello, I've been making great use of your program and it's been working wonderfully for me. I have a question though. I'm curious about what the MS1-subtract option and the...
Hi Vadim, Recently, I have tried to do some diGly modification searches for DIA data from Astral. I have set up the parameters according to the paper "Time-resolved in vivo...
installed dia_nn via wget https://github.com/vdemichev/DiaNN/releases/download/1.8/diann_1.8.deb dpkg -i diann_1.8.deb /usr/diann/1.8/diann-1.8 --f 1.raw --f 2.raw --f 3.raw --f 4_UT.raw --lib "" --threads 4 --verbose 3 --out /home/report.tsv --qvalue 0.01 --matrices --out-lib /home/Data_Task\MHC_I_II_uniprot_predicted_library.tsv...
I am using this in the command line using the debian package of diann to process my samples. /usr/diann/1.8.1# ./diann-1.8.1 --f "/home/19012024_PE_10min.raw" --f "/home/19012024_PE_30min.raw" --f "/home/19012024_PE_5min.raw" --f "/home/19012024_PE_UT.raw" --lib ""...
Hi Vadim, The Phospho enrichment we do in our lab is used to identify kinase substrates and identify regulatory changes in pathways (ex. info from Phospho SIte Plus). So I...
Best, Currently the --vis option is a great tool for me for visualizing the RT and intensity for peptides of interest. Is it realistic to also extract ion mobility information...
Dear Vadim, apologies to bother you with such a trivial question, but I didn't find the answer among all the post. I am using DIA-NN V1.8.2 beta 27 with MBR....
Hi Vadim, I have been testing the last beta and have several questions: Spectral library generation is a lot faster with 1.8.2. However, I have attempted interpreting raw files from...
Hi Vadim, I'm trying to analyze non-tryptic peptides in DIA-NN (1.8.1 and 1.8.2 beta) with a custom library. I'm finding around 3k precursors q < 0.01 per file, but because...
Hi Vadim, I downloaded a public Thermo Orbitrap Astral dataset (PXD042704) and test one 24min DIA data. In both 1.8.1 and 1.8.2 beta version, it exited after reading data, looks...
