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I am currently utilizing the Protein_ligand.ipynb.
However, I have encountered a notification from Colab indicating that the GPU is not being utilized during the runtime. Additionally, I am observing…
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Hello author,
It is impossible to create the protein embedding files because of an error while saving the file.
It seems the embeddings have different shapes and can not be saved together in a s…
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2024oct1 has fewer gene-protein conflations (19,701,538) than 2024aug18 (21,431,316) and slightly fewer info-content values (3,345,015) than 2024aug18 (3,346,582). We should figure out why this is.
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I've been developing a metagenomic/metatranscriptomics software suite called VEBA (https://github.com/jolespin/veba) that natively handles eukaryotic binning of metagenome-assembled genomes and exon-a…
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From string-db.org, will be used for constructing gene-gene edges of our graph.
Information Needed
- Source of data
- Where data is located
- Description of data
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Convert the `ComplexHeatmap` code to a function in the package. Allow users to select their given assay, and the start and end positions of the protein for plotting.
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Hi, I have a corpus of about 500,000 protein sequences and would like to apply them to existing models like this one for predicting the evolution of monoclonal antibody binding to an epitope.
How cou…
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Dear
Hello, I want to use my own dataset to train a model, but I'm not sure how to preprocess the input data. The function I have is:
python
def surfdata_prepare(ply_file, frag_kept_sdf):
'''
…
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Hi Dr. Vdemichev,
I was able to analyze the DIA-NN output using your R package. However, it only contains the Uniprot ID and correspondence value for each sample. I also want corresponding Protein Na…
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**What is this request referring to?**
protein-coding variant
**What is the name you would like SO to give the term?**
protein_coding_variant
**What is the definition that you would like for t…