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Howdy, thank u for ur awesome work in Enhancing Protein Language Models with Structure-based Encoder and Pre-training. I am running the pretaining experiment now, and I am facing an issue of "Can't fi…
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## Motivation
Pangenomes are key to understanding the distribution of gene content and synteny across closely related genomes. Currently, the driving force behind this strategy is sequence alignmen…
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**Submitting author:** @https://github.com/JosePereiraUA (José Pereira)
**Repository:** https://github.com/sergio-santos-group/ProtoSyn.jl
**Branch with paper.md** (empty if default branch):
**Versio…
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Is there a way to run batchConverter in a way to not use up a lot of RAM? When I'm trying to run it, it uses up all RAM and then crashes. The issue seems to come from the pad_sequence when there are a…
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where are the 2-3 most computationally-intensive loops in the fortran code that could be parallelized using OPENMP ?
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### Problem
I'm always frustrated when I have to enter the nutrition facts manually. :wink:
### Proposed solution
Especially given the recent developments of machine learning models getting …
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### Overview
This analysis can later be applied to build a recommendation system in the OpenVirome app and paper for suggesting indirectly related viromes. The embeddings can also be used to create u…
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AlphaFold's team just published a new tool - AlphaMissense:
https://www.science.org/doi/10.1126/science.adg7492
Calculated predictions are available at https://zenodo.org/record/8208688 (link take…
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E.g. `A71EV2A` crystal `0515` has several ligands modelled at residue index `201`. In the crystallographic PDB files they have the alternative site codes `A` and `B` to differentiate between the two m…