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I prepared a CPPs set using the ESM2-320 and ESM2-480 models for prediction, and most of the sequences resulted in 1. However, the predictions from your website do not reflect this.
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Hi
Thanks for developing GenoVi. Looks a great tool but I was not able to use it. Please see the error message I got below.
(/data/Food/analysis/R1479_neurofoods/genovi) [arghya.mukherjee@compute0…
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## Expected to have 'InChiKey', 'SMILE', and 'target_aa_code'
nodes_df = pd.read_csv('some_csv_file_path')
# Example entries
#nodes_df['InChiKey'] = ['HUMNYLRZRPPJDN-UHFFFAOYSA-N']
#nodes_df['…
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Awesome work :)
I am thinking about finetuning this model on specific protein domain with MLM task.
As in, starting from the SaProt model weights, further finetuning on un-labeled dataset.
1. W…
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@tdhock this is the outline of my new paper, can you give me some feedbacks
# Learning Penalty Parameters for Optimal Partitioning via Automatic Feature Extraction
## Abstract
Changepoint detec…
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Hello,
In the supplemental information of the BioRxiv preprint (https://www.biorxiv.org/content/10.1101/2023.02.06.527280v2.supplementary-material) I read that over-prediction in small contigs (small…
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Hi, thanks for the project. I am really interested in it.
But while finetuning with my own dataset, I've got confused.
Here's what I understood:
1. The model's input is a window of size {contex…
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Hi I would love to be able to run this with wgs sequences, and then again separately with amplicon assembles, so that ultimately I can make 2 trees and compare how they cluster depending on input sequ…
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I test osp 1.3 using the config below, but found that the inference speed is slower than 1.2 with same 93x720p 24fps. Do I miss something?
CUDA_VISIBLE_DEVICES=0,1,2,3,4,5,6,7 torchrun --nnodes=1 --n…
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Could you supply a script or notebook demonstrating how to perform regression analysis using two sequences as inputs? The input format would be "[CLS]GCTTAGCGAGACTAAATTATATAGCAGCT[SEP]CTAACTGCAGCCCGCC…