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Following the readme instructions I have downloaded the crossdocked, unzipped it and am trying to run the preprocessing script on it with and without the flag `--ca_only`.
Running
```
python pr…
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I was thinking of using DIPS-Plus for training a classifier for protein-protein interaction (I confess I have little experience in ML, any advice welcome).
The database describes the pairs based on t…
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Hello!
In tutorial 13 the data set pdbbind_core_df.csv is used. With the helper function convert_lines_to_mdtraj I am able to successfully save the the protein and the ligands to pdb files. In the …
ghost updated
4 years ago
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### What is the problem?
Got a weird error when trying to recursively install a dataset from a local relative path and in fact this is exactly the same problem as for `~` described in [#2232](https…
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Hello,
I am wondering if the training datasets used in the publication (RNAStralign, TR0, and fine-tuning dataset for bpRNA-new) are available? I was able to find the evaluation datasets from Googl…
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### Problem description
Running `datalad download-url --archive` on Windows downloads the archive and commits it to a dataset, but fails to unpack it:
```
PS C:\Users\mslw9\Documents\workshop\bar…
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I have been setting up the alphafold2 along with Docker. When I came to step 8 for test, I put the command in .sh file and run, but the following errors occurs:
```
~/bin/alphafold$ cat run_alpha…
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Can you provide the training set and verification set (PDB ID) used in the paper？ @akulikova64 @danny305 @clauswilke
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I can get a domain_seq.pkl containing coords and seq info from the code, but the dataset requires emb, padding and foldclass which the code can't generate. So how can I generate them , write my own c…
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I was having trouble running the Evaluation part, and it reported a strange error: ValueError: setting an array element with a sequence. The requested array has an inhomogeneous shape after 1 dimensi…