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I am having an issue running Lupine. I installed the software and downloaded the joint quantification data from github without any difficulty. However when I ran the tool on the joint quantification d…
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### What is the title of the roadmap you are submitting?
Roadmap to Bioinformatics
### Roadmap Link
# Bioinformatics Roadmap
**0. Why Bioinformatics?**
- **What is Bioinformatics?** Bioinfo…
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Hi Brian,
I am using EVidenceModeler to combine different evidence and to have a final genome annotation.
I would like to include in my weight file:
- Ab initio gene prediction obtained from Au…
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Hello,
Thank you for all the great tools coming from this team.
I gave Braker3 a shot, but am running into an error at the moment. I will report below how I installed Braker3, and how I used it…
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Following youtube toturial, I firstly created an new project and moved my "report.tsv" file in it. Running DIAgui, shiny tool appeared. clicking "Select your report file", there is no any file in sele…
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Hi @tobymathieson @holfra @gavswe
I am trying to follow your TPP-TR analysis pipeline mentioned in Franken et al (2015) Nature Protocol. Although I have some experience with R language but I am to…
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Hi
Thank you for creating this nice tool. I was wondering what happens when I use the "keep only proteotypic peptides" option on the "Protein Groups". Once, I use this option, the protein groups es…
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## Tasks
1. all PCGs BLAST all-vs-all search - diamond.py
2. gene sets construction
3. real alignments to respective sample contigs specific to gene coordinates
4. module detection of coverage-c…
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Hello,
I am trying to create an in-silico predicted spectral library in DIA-NN and I am interested in detecting variable carbamylation of lysine (K) and arginine (R), as well as the carbamylation a…
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I tried running the latest version over some timsTOF-pro data containing phospho-enriched peptides
```
diann.exe --f "F:\promec\TIMSTOF\LARS\2024\241002_zrimac\zr_IMAC_100ug_zoom20_1dia_25pepsep_S1-…