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First i must commend that finally i can reproduce Intensity values from my beloved MaxQuant, shown below are scatter (x-run1, y-run2, R^2 in blue)
![image](https://github.com/user-attachments/asset…
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I am evaluating the accuracy of Fragpipe.
Using Fragpipe 19.1 (MSFragger-3.7; IonQuant-1.8.10; philosopher_v4.8.0; Percolator 3.05), I run an LFQ analysis on publicly available data.
I used file…
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hi,
Is it necessary to manually perform all_reduce on the prob during distributed training when using lfq?
https://github.com/lucidrains/vector-quantize-pytorch/blob/4c514db53457883348d8422ae01af293…
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Great method!
One question regarding the DEP before proDA. Shouldn't the argument filter = c("Reverse",
"Potential.contaminant") in the function import_MaxQuant be explicit before proDA?
How…
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When I trained on several objects with several epochs, the commit loss starts to become negative, and it turns out that the overall loss keeps going down, but neither the recon loss nor the recons…
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|------------------|-----------------|
|Previous ID | SR-4881 |
|Radar | None |
|Original Reporter | _BrandonBradl…
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Hi Vadim,
I am trying to use the new version for PTM analysis. I can see the quant files but no output (none of report.tsv files) is generated. Especially if click MBR ON it gives output but withou…
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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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@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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**- Upload your log file**
[log_2024-07-15_10-14-20.txt](https://github.com/user-attachments/files/16229579/log_2024-07-15_10-14-20.txt)
**- Describe the issue or question:**
Do you have any su…