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Hello Jan-Diederik,
I am trying to utilize this model for my NCR region (where total population size is mostly 13 million). I have used your netherlands_april9_narrow.json as a reference and co…
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Hello,
I am trying to use voronota to calculate clashes between chains, as a filtering method to distinguish between potential OK and definitely bad protein:protein predicted models.
I am getting …
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Hello, I am having an issue using deephlapan.
I used the docker installation on MacOS. When I run the program on a test peptide or a file of several peptides, it stop at the same step.
First, I get…
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Beginning with sequence-based searches of the literature via PaperBLAST and using the sequences acquired from PomBase, UniProtKB
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I received a small grant to support experimental, biochemical testing of potential targets for Series 3 (#549) through partnerships with the wonderful core labs (NMR, mass spectrometry, X-ray crystall…
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My data set is a protein sequence, such as "ABCDLSGFNKZDF", which does not involve a 3D structure and has no pdb file. How should I convert it into a SA sequence? Thanks
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Hi everyone,
Im trying to train a new model with my own data. Step 1 (computing embeddings) and 2 (zero-shot) are running perfectly, but step 3 is complaining about missing embeddings:
`Error l…
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Hello,
Thank you for an amazing tool! In your README you are saying Puffin can be used for "Predict the effect of mutations on transcription initiation and study its mechanisms." If I have a VCF fi…
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Thank you very much for providing this amazing resource!
I would appreciate your help:
1. Would you please direct me to the ProteinNPT predictions for each mutant in the random CV scheme?
2. Were…
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Hi there,
Thank you so much for this awesome paper!
I am wondering how do you implement in silico mutagenesis analysis?
Is there any materials that I can look into?
Thank you so much!