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When I use openfold to infer proteins, some of them can be inferred, but some of them will report errors. The reason for the error is probably: the template name searched out is outdated, and there is…
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## Introduction
This bug was previously reported here: https://github.com/googlecolab/colabtools/issues/3687
It seems that they recognized the bug, but that you are better suited to solve it.
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Hello,
I am a pHD student in Bioinformatics at the University of Toledo. While my work focuses mainly on Neuroscience, I work with all different times of omics data sets. I would like a video on Se…
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## Expected Behavior
Recently when we attempted to run AF2 on a complex but failed with following error message. We then test it with a notebook we ran before and same error was generated. Please hel…
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Hi Sean,
I've been using the Protein Metrics on Google Colab for the past few days, but for some reason I keep getting errors when I try to calculate scores using ESA-MSA sampler-generated sequence…
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## Expected Behavior
generate a zipped file containing the amber relaxed structure of each uploaded pdb file
## Current Behavior
only the first one is relaxed and downloaded
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## 🚀 Feature
I propose adding protein sequence data to MolNet as part of the recent efforts to increase support for proteins. Please feel free to suggest alternative datasets or use cases that shou…
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## Expected Behavior
When I using ColabFold: AlphaFold2 using MMseqs2 (ColabFold v1.2 , model_type: AF2-multimer) with "use_templates" option, I found my predicted structure is much better than witho…
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Hi Everyone. Whenever I try to save embeddings for my protein sequence I get an error suggesting nothing is returned from running the model.
Running the multimer model on a protein complex (in csv…
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## Expected Behavior
Fully functioning colab_batch with GPU.
## Current Behavior
colabfold_batch: error: unrecognized arguments: --use-gpu-relax
## Steps to Reproduce (for bugs)
Install as de…