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Thank you for this tool.
I want to know if you have any recommendations for how to handle missing value? I understand that imputation is not the ideal way. However, it is hard to find that those c…
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### Description of the bug
Analyzing single cell dataset [PXD016291](https://www.ebi.ac.uk/pride/archive/projects/PXD016921). The results folder can be found in [here](http://ftp.pride.ebi.ac.uk/pu…
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Please provide as much information as you can:
* **Suggested term label:**
New term: evasion of symbiont recognition by host pattern recognition receptor
* **Definition (free text)**
* by…
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Hi Vadim,
I had a question regarding the deep learning feature in DIA-NN. I am analyzing PTM data and specify the respective UniMod with the --var-mod command. When using library-free deep learning, …
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Hi Paul,
The scripting function `set_scroll_wheel_map(map_id)` and `set_scrollable_map(map_id)` both set the scroll_wheel_map correctly (as judged by which contour level changes), but the visual in…
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Dear Developers
I am new to the Alpha Environment and have recently come across a project in which I have to select peptides for targeted detection.
Does your framework provide the possibility to pr…
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Hello,
We are experiencing a significant coverage issue when using MSFragger in FragPipe relative to PD. The largest difference is in the total number of identified peptides, and the second are the…
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Hello,
I am trying to generate reference files, but the continually get an error no matter which annotation file I use (Ensembl annotations included):
buildRef(
reference_path = ref_path,
…
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Dear developers,
**Is your feature request related to a problem?**
The issue is that the ions with different compensation voltages (CV) are currently being paired in the combined_ion table, which …
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**Source file:** downloads/biomarkerdb/current/allbiomarkers-all.csv
**Output files:** glycan_biomarkers.csv & human_protein_biomarkers.csv
**Changes in processing:**
1. Biomarker ID with multi…