software . 2021

Analysis of amino acid change dynamics reveals SARS-CoV-2 variant emergence

Bernasconi, Anna; Mari, Lorenzo; Casagrandi, Renato; Ceri, Stefano;
Open Access English
  • Published: 11 Jul 2021
  • Publisher: Zenodo
Abstract
Data and code for paper "<strong>Analysis of amino acid change dynamics reveals SARS-CoV-2 variant emergence</strong>", now under revision. The repository contains: two files for each of 44 locations (including 19 countries and 25 US states) CoV_&lt;location&gt;_mut5_obs3_absolute.csv (a matrix of amino acid changes [rows], collection weeks [columns], counts of sequences with amino acid change [cells]) CoV_&lt;location&gt;_mut5_obs3_totals.csv (a vector of total collected sequences per each week [columns]) one lineage dictionary (lins_changes75_2_5000_1000.csv) one MATLAB script for reproducing all the results of the paper (variants_clustering.m)
Subjects
Medical Subject Headings: skin and connective tissue diseases
free text keywords: SARS-CoV-2, COVID-19, Variants, Amino acid changes, Clustering
Related Organizations
Funded by
EC| GeCo
Project
GeCo
Data-Driven Genomic Computing
  • Funder: European Commission (EC)
  • Project Code: 693174
  • Funding stream: H2020 | ERC | ERC-ADG
Communities
COVID-19
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Software . 2021
Provider: Datacite
Zenodo
Software . 2021
Provider: Datacite
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