ColabFold
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sokrypton
Making Protein folding accessible to all!
Is it normal for the finished database (after mmseqs tsv2exprofiledb and mmseqs createindex) to consist of: colabfold_envdb_202108.tsv colabfold_envdb_202108_aln.tsv colabfold_envdb_202108_db.0-63 (64 files) colabfold_envdb_202108_db.dbtype colabfold_envdb_202108.idx.1-4 (4 files) colabfold_envdb_202108_db.idx.dbtype colabfold_envdb_202108_db.index colabfold_envdb_202108_db_aln.0-63 (64 files)...
## Expected Behavior run batch predictions from google drive - used to work just fine. ## Current Behavior When running now getting this error: AttributeError: module 'jaxlib.pocketfft' has no attribute...
## Expected Behavior I am trying to predict structures and include Amber refinement for more accurate side chain positioning. ## Current Behavior When running Alphafold2_advanced.ipynb with Amber enabled (step 6)...
How can I connect the embedding to the original sequence? For example, for the input sequence of 120 residues I got a single residue embedding of 132x384. Does it include...
I was predicting the structure of a complex using the CoLab (AlphaFold2) by uploading unpaired alignments of the monomers. I encountered the error (**List index out of range**) at the...
Keep getting this error when attempting to run prediction. --------------------------------------------------------------------------- ModuleNotFoundError Traceback (most recent call last) [](https://localhost:8080/#) in () 5 from colabfold.download import download_alphafold_params, default_data_dir 6 from colabfold.utils import setup_logging...
Hi there, There are a few options for `colabfold_batch` that don't have or have barely anything in their description, and they are not necessarily self-explanatory. I mainly refer to: ```...
Current conda python version 3.10 raises the following error during the installation: ```shell ERROR: Could not find a version that satisfies the requirement tensorflow-cpu
Hi, I was wondering how can I set up [PDB70](https://wwwuser.gwdg.de/~compbiol/data/hhsuite/databases/hhsuite_dbs/) using mmseqs like uniref30 or colabfoldDB as it's done by `setup_databases.sh` script. I would appreciate any help since I couldn’t...
@sokrypton I am using ColabFold: AlphaFold2 using MMseqs2 and free version of google colab. In Run Prediction command after building 4 models the system become busy (which can be connected...
