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Observations-of-COVID-19-vaccine-coverage-and-hesitancy
Observations-of-COVID-19-vaccine-coverage-and-hesitancy PublicGit Repository for Observations of COVID-19 vaccine coverage and vaccine hesitancy on COVID-19 outbreak: An American ecological study
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SARS-CoV-2-transformer-based-model-training-dataset
SARS-CoV-2-transformer-based-model-training-dataset PublicPython scripts that allow user to locally subset any given large corpus dataset to pretrain and finetune transformer-based model by filtering out ambiguous sequences, and convert to model readable …
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DNABert2-RNAseq-classification-model
DNABert2-RNAseq-classification-model PublicPython scripts that are used to train and apply DNABert2 models to classify RNASeq reads to detect coinfections of IAV, IBV, RSV and SARS-CoV-2
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kraken2_metagenomic
kraken2_metagenomic PublicPython scripts that download, trim, align SRA files to host genome, extract unaligned reads and detect pathogens using Kraken2
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