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Hi,
I am using AlphaPulldown 2.0.0 beta v2. Compared to AlphaPulldown v0.30.7 (which I used before) the behavior of the all_vs_all mode seems to be different. This mode now also predicts models for…
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When setting up a new PC to run AlphaFold locally, should I look for a GPU with more tensor cores or cuda cores? For example, are we better off going with the Nvidia Quadro or GeForce line? Can anyone…
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Hi there,
I want to run Alphafold on a protein against a dimer receptor. I have one sequence for the protein and one sequence for the monomer of the receptor. I was wondering which model I could a…
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Some evidence that predicted alignment error will be a better metric for success of multimers than pLDDT.
- [x] add functionality to simply collect AF2 metrics for a list of sequences with intended…
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* **InterPro ID / label**
InterPro:IPR005677 Fumarate hydratase, class II
* **Description of issue**
This entry is for fumarate hydratase, which is characterised to be a homotetramer. However, it…
sjm41 updated
8 months ago
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Hi!
Is it possible to use a MSA directly for the prediction ?
I already configured colabfold which takes a lot of space in my hard drive and I would like to avoid creating another database (if p…
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# Problem Description
When running monomer prediction with more than 3 recycles the inference pipeline fails at: https://github.com/KosinskiLab/AlphaPulldown/blob/f25cd086c3c2569c4391321c270c09de90…
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The following term requests and updates have been reviewed by the Dietary Fiber Ontology Working Group.
# Term Updates: Definition Changes
## Term Label: dietary fibre
**Current CDNO definiti…
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https://www.sigmaaldrich.com/US/en/technical-documents/technical-article/materials-science-and-engineering/polymer-synthesis/thermal-transitions-of-homopolymers
We need to record this list and add …
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Hello,
I'm not sure at what stage STAR-fusion fails - but it seems to have generated the star-fusion.fusion_predictions.abridged.coding_effect.tsv but might be missing some of the output files fro…