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Hi,
If it’s possible to add both gene and transcript expression annotations to the input VCF file for `pVACseq` (`GX` and `TX` fields with `vcf-expression-annotator`), is it advisable to include bo…
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Hello,
I run bamquery
```python
!python xxx/Software/bamquery/BamQuery/BamQuery.py xxx/Software/bamquery/BamQuery try_1 v38_104 --mode normal --t 8 --plots
```
And my output is as follows,
`…
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Hello dear author,
thank you very much for developing such a powerful tool.
I recently identified the immunopeptides by mass spectrometry. I would like to ask if this tool can be used to predict t…
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Hello,
we have generated an HLA-peptides library using PeptDeep-HLA for the prediction of peptides and alphapeptdeep for library generation and conversion to .tsv for compatibility with DIANN. Then…
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Add RDKit descriptors calculated from SMILES generated from peptide sequence.
- [x] Calculate SMILES for sequence column.
- [ ] Use RDKit on calculated SMILES to get descriptors.
- [ ] Add "Pepti…
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Hi
whether the exported results from DIA_NN contain information about peptide coverage?
if not, how can I use the output files to calculate the peptide coverage? at the same time, if there are any …
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Currently this code works for peptides in 12 -24 AA range. it appears this in enforced for the percentile calculation. Would removing this limitation still allow for the log odd calcualtions?
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Hi Bo,
I was using the standalone tool to identify/validate a novel peptide. How do I know the abundance of that peptide in different samples?
best,
Emily
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The work is incredibly constructive, particularly for RFdiffusion, which traditionally struggles to produce stable short peptides in the range of 10 to 30 amino acids.
Despite this, after a week of …
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**Steps to Reproduce**
**Case 1**
1. Add some molecules and structures on canvas in micro mode ( e.g. Benzene ring, molecules )
2. Switch to Macro mode and hover over abbreviations
**Case 2**
1…