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Got the following error message after running test.py. Please help, Thanks!
model.load_state_dict(torch.load('model/model_trained.pkl'))
File "/home/miniconda/envs/torch11/lib/python3.11/sit…
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Would it make sense to utilise PoET for binding affinity prediction (ic50 score) of short peptide sequences (8-16 amino acids)? If yes, do you have any suggestions/comments on how to do it? Is it poss…
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Hi, I’m encountering errors while running pvactools (version 4.4.1) on a SLURM-managed HPC cluster. The pipeline fails during MHC Class I predictions, specifically with NetMHCcons and MHCflurry. Below…
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`{"detail":"Command '['netMHCpan', '--version', '_MHCTOOLS_VERSION_SNIFFING']' returned non-zero exit status 1."}`
```
# /opt/netMHCpan-4.1/Linux_x86_64/bin/netMHCpan --version _MHCTOOLS_VERSION_S…
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Would it be possible to add NetH2pan as a supported epitope prediction algorithm? NetH2pan is a standard benchmark/tool for MHC class I binding affinity predictions in mice.
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https://doi.org/10.1101/239236 https://www.biorxiv.org/content/early/2017/12/24/239236
> Convolutional neural networks (CNN) have been shown to outperform conventional methods in DNA-protien bindin…
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https://doi.org/10.1093/bioinformatics/btx480
>MOTIVATION:
An accurate characterization of transcription factor (TF)-DNA affinity landscape is crucial to a quantitative understanding of the molecu…
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DEEPScreen gives out results active or inactive.
Is there a data of binding affinity included in it. Also the accuracy of result will be lesser if 2D Image is taken rather than 3D conformation image …
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Hello, glad to see your excellent work!
I encountered a TypeError: string indices must be integers when I tried to reproduce the result of protein-ligand binding affinity prediction using command `py…
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complex ../top1_pose_sdf/7kk4_20_-117.1620.sdf generation failed...
complex ../top1_pose_sdf/7kk4_44_-95.7014.sdf generation failed...
sh: 1: chimera: not found
complex ../top1_pose_sdf/4nw6_45_-65…