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I'm a little confused about how to use the output from the prework and perform docking and Ligplus with Imatinib for alphafold. I downloaded the zip file from alpha fold and there's 5 different pdbs i…
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Are there any other alternative way to download this file? bfd_metaclust_clu_complete_id30_c90_final_seq.sorted_opt.tar.gz?
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Hey guys,
I get this when i run alphafold
```
python3 docker/run_docker.py --fasta_paths=/home/ahmedhas/Desktop/test.fasta --max_template_date=2021-11-01 --model_preset=multimer --data_d…
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Hi,
First of all, thanks for developing this tool, I'm looking forward to playing with it!
I installed the ParallelFold into a Ubuntu 18 machine, and the full alphafold database into an external…
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```
I0322 10:43:41.310137 140522693193920 run_docker.py:258] I0322 14:43:41.309186 140233224365888 pipeline.py:235] BFD MSA size: 7266 sequences.
I0322 10:43:41.310351 140522693193920 run_docker.py:…
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Hi,I ran this project on my server in order to predict the structure of some polypeptides in batches. Predicting is slow when running on nodes without GPU, and with the parameter set to recycle-3 mode…
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Thanks to the devs for providing an Anaconda-based solution for AlphaFold! I have a lot of experience with Anaconda virtual environment management, but none with Docker.
Unfortunately, I am stuck …
bwllc updated
6 months ago
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I am trying to run a `foldseek easy-search` job with the UniProt database built from `foldseek databases Alphafold/UniProt`. With two different attempts on different machines (with up to 256GB memory)…
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**Youtube**
- [x] [AlphaFold2, OpenFold, Protein Language Models and Beyond | Nazim Bouatta](https://www.youtube.com/watch?v=ON1ltprZKPo) from Molecular Modeling and Drug Discovery (M2D2) 2022
- […
kntkb updated
7 months ago
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Hi Team EVCouplings,
Is it possible to run EVCouplings to automatically search against UNIPROT's Alphafold dataset, e.g. instead of the PDB?
zach cp