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F1000Research

Sustainable data analysis with Snakemake

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F1000Research

Early detection and surveillance of SARS-CoV-2 genomic variants in wastewater using COJAC

Katharina Jahn, David Dreifuss, Ivan Topolsky, +21

Nature Microbiology

V-pipe: a computational pipeline for assessing viral genetic diversity from high-throughput data

Susana Posada-Céspedes, David Seifert, Ivan Topolsky, +3

Bioinformatics

Detection and surveillance of SARS-CoV-2 genomic variants in wastewater

Katharina Jahn, David Dreifuss, Ivan Topolsky, +21

Viral DiagnosticsMunicipal WastewaterCovid-19Viral EvolutionFewer Wastewater Samples +15

Quantification of the spread of SARS-CoV-2 variant B.1.1.7 in Switzerland

Chaoran Chen, Sarah Nadeau, Ivan Topolsky, +49

Epidemics

Swiss public health measures associated with reduced SARS-CoV-2 transmission using genome data

Sarah Nadeau, Timothy G. Vaughan, Christiane Beckmann, +45

Science Translational Medicine

Genome DataVirus EpidemiologyEpidemiological DynamicLocal Transmission DynamicsCovid-19 Epidemiology +19

Within-patient genetic diversity of SARS-CoV-2

Jack Kuipers, Aashil A. Batavia, Kim Philipp Jablonski, +25

Genetic DiversityViral EvolutionNext-generation SequencingGeneticsWithin-patient Genetic Diversity +12

Chromosomal origin of replication coordinates logically distinct types of bacterial genetic regulation

Kosmas Kosmidis, Kim Philipp Jablonski, Georgi Muskhelishvili, +1

npj Systems Biology and Applications

Quantifying SARS-CoV-2 spread in Switzerland based on genomic sequencing data

Sarah Nadeau, Christiane Beckmann, Ivan Topolsky, +38

Infectious Disease EpidemiologyViral EvolutionGenomic Sequencing DataVirus EpidemiologyGeneral Lower Virulence +13