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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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I found error while executing AlphaPept input file. According to the [intable_config.yaml](https://github.com/MannLabs/directlfq/blob/master/directlfq/configs/intable_config.yaml), the results_peptide…
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Hi Thang,
Here #7 you have proposed a way to calculate the number of peptides used for quantification to filter the final MaxLFQ table.
I was wondering, how is this different from the option `p…
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Added new columns and data to previous table in issue#445
| File Category | Old Data Filename | New Data Filename …
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I recently began using the Linux platform for work. I considered using our server, which is running Ubuntu 22.04.4 LTS, to run DIA-NN.
_I installed .deb version._ I converted .wiff to .mzml and kept …
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Hi!
I am quite new in PeptideShaker so I am still not familiar with all the available options and more importantly with methods that the program utilizes to do certain things.
Now I'm struggling w…
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**Describe the bug**
It takes 120 to 150 hours per file to finish the deisotoping step. Is this normal? I will also post this in the gmail group.
Also another post here might be of similar problem? …
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Hello DIANN Team,
I've been exploring the quantitative results produced by DIANN and have noticed significant variances depending on whether Match Between Runs (MBR) is enabled. Specifically, disab…
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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…
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Thanks for the very helpful software.
**I have an issue that DIA-NN exited but no output generated. The DIA-NN exited after loading one input file. However, the desired output folder is empty. The…