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CC @TomSmithCGAT @csdaw @Charl-Hutchings
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Hi Vadim,
We have an experiment that requires only intensity values without normalizition.
I tried to run DIANN with the additional commands:
--no-maxlfq
--no-norm
and the output tables were e…
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I see LFQ result 3 loss
```
# 1. entropy will be nudged to be low for each code, to encourage the network to output confident predictions (per_sample_entropy)
# 2. codebook entropy will be nudged t…
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Hi Fragpipe developers,
I'm trying to do a protein ID and LFQ of 12 samples using Fragpipe on the CLI, just like many times before. I ran into this issue in the mass calibration and parameter optim…
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Dear Fragpipe Team:
We recently did a test(LFQ)and searched the database together for two proteins with the same amino acid sequence. As a result, the two proteins had a common peptide segment…
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@Douerww Some major improvements we should do:
- Can we remove the heatmap generation using python an use R. I think we should remove the python call from the code.
- I guess the plot instead of…
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Hi,
Thank you for the quick integration of LFQ while we work on the official release! I'd like to clarify two points regarding the details to avoid confusion of users:
(1) By default we do not u…
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[log_2024-07-01_16-12-19.zip](https://github.com/user-attachments/files/16054239/log_2024-07-01_16-12-19.zip)
Hi,
I processed three timsTOF .d files with FragPipe 22 using the LFQ-phospho w…
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**Describe the bug**
I exported my data from Bruker in the mzXML format. However, when I load it into MaxQuant for LFQ analysis, I encounter an error in the status column, and the program shuts down.…
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@timosachsenberg , Oliver said you might have some Galaxy workflows that used the output of CTDConverter?