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Hey!
First of all thank you very much for providing MutateX and also RosettaDDG prediction! I am using RosettaDDG prediction to refine upon my predictions from MutateX and i want to use MutateX for p…
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It looks like the script doesn't work when running on predictions that have modified residues. For example, running on a prediction that contains several Aceytyl-Lysine (three letter code "ALY") resid…
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I've been developing a metagenomic/metatranscriptomics software suite called VEBA (https://github.com/jolespin/veba) that natively handles eukaryotic binning of metagenome-assembled genomes and exon-a…
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Hi,
Is there a way (or a flag) for having multiple PDB structures predicted for protein-protein complex with small molecule? The default is only one outout PDB given.
mtahe updated
6 months ago
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Hi all
I'm interested in generating contact maps from the ESM2 attention heads as described in the following github notebook:
https://github.com/facebookresearch/esm/blob/main/examples/contact_predi…
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### Title
### GitHub Issue: Roadmap for Computational Biology
---
#### **Title**
**Develop a Comprehensive Roadmap for Computational Biology**
### Enhancement Aim
#### **Aim**
To create…
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when multiple small molecule inputs (B, C, D...) predicted with one protein molecule result clashes between small molecules. I assume that they don't consider interactions between small molecules... i…
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Dear Chai Discovery Team,
First of all, I want to express my gratitude for making the Chai-1 codebase open-source and accessible to the community. Your work is truly invaluable and has great potent…
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Awesome work :)
I am thinking about finetuning this model on specific protein domain with MLM task.
As in, starting from the SaProt model weights, further finetuning on un-labeled dataset.
1. W…
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I tried to predict two RNA strands with cas9 (PDB ID: 4OO8).
However, RNA structures were crashed like fragment of skein.
Not only for this, but also same RNA structure were simulated without protei…