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Dear PepLand team,
Thanks once again for your great paper and model!
I am trying to apply the pretrained model to my own peptides to obtain embeddings. However, I get the error message `Warning …
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When I use the peptide builder to build peptides with a C-terminal serine and save then as a pdb file, the residues names of the entire peptide go to UNK instead of the right names (... - ... - SER). …
cryos updated
8 years ago
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I am getting the following error when I try and run MuPeXI on one of my vcf files.
Reading in data
Creating proteome reference dictionary
Creating genome reference dictionary
Creating cancer …
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Hello,
I am learning to refine our predicted spectral library to better match various samples (various proteolytic peptides, novel modifications, etc.). I am starting with standard unmodified tryptic…
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Hi Diamond developers,
Thanks for developing such an awesome tool. I'm using Diamond to analyze mass spec data and all of them are very short peptides (usually 8-12 aas). I want to see if there is an…
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Hello Vadim, I have recently downloaded DIA-NN 1.8 version for the analysis. When I open the software, It doesnot show the complete DIA-NN setup, the window only shows half of the settings or page. I …
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Tide theoretical spectra are limited to charge 2+ fragments - see function AddIons in peptide.cc. This will lead to different theoretical spectra than those produced by Crux when precursor charge > 3…
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### Basic information
* My operating system: Windows 11
* My mzmine version: 4.2.0
### What happened
I was trying to use spectral/molecular networking to group precursors based on the similari…
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Objectives of the tool:
- Create a subdirectory to store the essential information (files) needed for review
- Create a Tiered and Annotated report table that makes it more clear which fusion cand…
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Hello, I'm having a lot of difficulty understanding how to map pepquery output to TMT tag of GTEx so that I can correctly map peptide to sample_ID.
I know this issue was opened before, but I do not…