Code and data sharing for manuscript titled "Transmission heterogeneities, kinetics, and controllability of SARS-CoV-2"

COVFlow: performing virus phylodynamics analyses from selected SARS-CoV-2 genome sequences

Danesh, Gonché
Boennec, Corentin
Verdurme, Laura
Roussel, Mathilde
Trombert-Paolantoni, Sabine
Visseaux, Benoit
Haim-Boukobza, Stéphanie
Alizon, Samuel

June 2023

This upload contains pipeline configuration files, output data and scripts required to reproduce the...

Data and code for "Rapidly shifting immunologic landscape and severity of SARS-CoV-2 in the Omicron era in South Africa"

Sun, Kaiyuan

October 2022

Data and code for "Rapidly shifting immunologic landscape and severity of SARS-CoV-2 in the Omicron ...

The challenges of containing SARS-CoV-2 via test-trace-and-isolate

Sebastian Contreras
Jonas Dehning
Matthias Loidolt
Johannes Zierenberg
F. Paul Spitzner
Jorge H. Urrea-Quintero
Sebastian B. Mohr
Michael Wilczek
Michael Wibral
Viola Priesemann

November 2020

Code repository for the paper "The challenges of containing SARS-CoV-2 via test-trace-and-isolate

Code and data sharing for manuscript titled "Transmission heterogeneities, kinetics, and controllability of SARS-CoV-2"

Sun, Kaiyuan
Wang, Wei
Gao, Lidong
Wang, Yan
Luo, Kaiwei
Ren, Lingshuang
Zhang, Zhifei
Chen, Xinghui
Zhao, Shanlu
Huang, Yiwei
Sun, Qianlai
Liu, Ziyan
Litvinova, Maria
Vespignani, Alessandro
Ajelli, Marco
Viboud, Cécile
Yu, Hongjie

October 2020

Code and data sharing for manuscript titled "Transmission heterogeneities, kinetics, and controllabi...

Code for: How time-scale differences in asymptomatic and symptomatic transmission shape SARS-CoV-2 outbreak dynamics

Jeremy D. Harris
Sang Woo Park
Jonathan Dushoff
Joshua S. Weitz

January 2023

Created for the manuscript published in Epidemics titled: How time-scale differences in asymptomatic...

Code and data for: SARS-CoV-2 transmission across age groups in France and implications for control

Tran Kiem, Cécile
Bosetti, Paolo
Paireau, Juliette
Crépey, Pascal
Salje, Henrik
Lefrancq, Noémie
Fontanet, Arnaud
Benamouzig, Daniel
Boëlle, Pierre-Yves
Desenclos, Jean-Claude
Opatowski, Lulla
Cauchemez, Simon

October 2021

Code and data used in the manuscript SARS-CoV-2 transmission across age groups in France and implica...

Custom code: Transmission of SARS-CoV-2 from humans to animals and potential host adaptation

Cedric C.S. Tan

May 2022

Custom scripts and code used to perform all analyses in the associated manuscript

Global-landscape-of-SARS-CoV-2-variants

Zhiyuan Chen

January 2022

We deposited the data and codes for articles entitled "Global landscape of SARS-CoV-2 genomic survei...

Supplementary Material and Code of Evidence for immunity to SARS-CoV-2 from epidemiological data series

Yubero, Pablo
Lavin, Alvar A.
Poyatos, Juan F.

January 2021

This Supplementary Material file, Code and Data correspond to the manuscript: Evidence for immunity...

Code "SARS-CoV-2 transmission patterns in education settings during the Alpha wave in Reggio Emilia, Italy"

Carla Molina Grané
Piero Poletti

June 2023

Code used to obtain the results presented in the manuscript "SARS-CoV-2 transmission patterns in edu...

Data for manuscript "Estimate of airborne transmission of SARS-CoV-2 using real time tracking of healthcare workers."

Hota, Bala
Stein, Brian
Tomich, Alex

July 2020

These are the data sets for a manuscript to calculate the transmissability of SARS CoV-2 via the air...

Heterogeneity in transmissibility and shedding SARS-CoV-2 via droplets and aerosols

Paul Z. Chen
Niklas Bobrovitz
Zahra Premji
Marion Koopmans
David N. Fisman
Frank X. Gu

October 2020

Raw data collected from the systematic review + outputs from analyses and models. The link to these...

data set to bioRxiv preprint 'Persistent cross-species SARS-CoV-2 variant infectivity predicted via comparative molecular dynamics simulation

Gregory A Babbitt

April 2022

This is supporting data and software code for the following preprint in bioRxiv Persistent cross-sp...

Code and data of article "Estimating SARS-CoV-2 infections and associated changes in COVID-19 severity and fatality"

Valentina Marziano

June 2023

Code and data used in the journal article "Estimating SARS-CoV-2 infections and associated changes i...

Data for the manuscript "Identification and structural studies of the crucial RNAi target of SARS-CoV-2 through molecular dynamics simulations"

Mallikarjunachari Uppuladinne
Shruti Koulgi
Vinod Jani
Uddhavesh Sonavane
Rajendra Joshi

May 2023

Simulation datasets for manuscript titled "Identification and structural studies of the crucial RNAi...

COVFlow: performing virus phylodynamics analyses from selected SARS-CoV-2 genome sequences

Danesh, Gonché
Boennec, Corentin
Verdurme, Laura
Roussel, Mathilde
Trombert-Paolantoni, Sabine
Visseaux, Benoit
Haim-Boukobza, Stéphanie
Alizon, Samuel

June 2023

This upload contains pipeline configuration files, output data and scripts required to reproduce the...

Data and code for "Rapidly shifting immunologic landscape and severity of SARS-CoV-2 in the Omicron era in South Africa"

Sun, Kaiyuan

October 2022

Data and code for "Rapidly shifting immunologic landscape and severity of SARS-CoV-2 in the Omicron ...

The challenges of containing SARS-CoV-2 via test-trace-and-isolate

Sebastian Contreras
Jonas Dehning
Matthias Loidolt
Johannes Zierenberg
F. Paul Spitzner
Jorge H. Urrea-Quintero
Sebastian B. Mohr
Michael Wilczek
Michael Wibral
Viola Priesemann

November 2020

Code repository for the paper "The challenges of containing SARS-CoV-2 via test-trace-and-isolate

Code and data sharing for manuscript titled "Transmission heterogeneities, kinetics, and controllability of SARS-CoV-2"

Sun, Kaiyuan
Wang, Wei
Gao, Lidong
Wang, Yan
Luo, Kaiwei
Ren, Lingshuang
Zhang, Zhifei
Chen, Xinghui
Zhao, Shanlu
Huang, Yiwei
Sun, Qianlai
Liu, Ziyan
Litvinova, Maria
Vespignani, Alessandro
Ajelli, Marco
Viboud, Cécile
Yu, Hongjie

October 2020

Code and data sharing for manuscript titled "Transmission heterogeneities, kinetics, and controllabi...

Code for: How time-scale differences in asymptomatic and symptomatic transmission shape SARS-CoV-2 outbreak dynamics

Jeremy D. Harris
Sang Woo Park
Jonathan Dushoff
Joshua S. Weitz

January 2023

Created for the manuscript published in Epidemics titled: How time-scale differences in asymptomatic...

Code and data for: SARS-CoV-2 transmission across age groups in France and implications for control

Tran Kiem, Cécile
Bosetti, Paolo
Paireau, Juliette
Crépey, Pascal
Salje, Henrik
Lefrancq, Noémie
Fontanet, Arnaud
Benamouzig, Daniel
Boëlle, Pierre-Yves
Desenclos, Jean-Claude
Opatowski, Lulla
Cauchemez, Simon

October 2021

Code and data used in the manuscript SARS-CoV-2 transmission across age groups in France and implica...

Custom code: Transmission of SARS-CoV-2 from humans to animals and potential host adaptation

Cedric C.S. Tan

May 2022

Custom scripts and code used to perform all analyses in the associated manuscript

Global-landscape-of-SARS-CoV-2-variants

Zhiyuan Chen

January 2022

We deposited the data and codes for articles entitled "Global landscape of SARS-CoV-2 genomic survei...

Supplementary Material and Code of Evidence for immunity to SARS-CoV-2 from epidemiological data series

Yubero, Pablo
Lavin, Alvar A.
Poyatos, Juan F.

January 2021

This Supplementary Material file, Code and Data correspond to the manuscript: Evidence for immunity...

Code "SARS-CoV-2 transmission patterns in education settings during the Alpha wave in Reggio Emilia, Italy"

Carla Molina Grané
Piero Poletti

June 2023

Code used to obtain the results presented in the manuscript "SARS-CoV-2 transmission patterns in edu...

Data for manuscript "Estimate of airborne transmission of SARS-CoV-2 using real time tracking of healthcare workers."

Hota, Bala
Stein, Brian
Tomich, Alex

July 2020

These are the data sets for a manuscript to calculate the transmissability of SARS CoV-2 via the air...

Heterogeneity in transmissibility and shedding SARS-CoV-2 via droplets and aerosols

Paul Z. Chen
Niklas Bobrovitz
Zahra Premji
Marion Koopmans
David N. Fisman
Frank X. Gu

October 2020

Raw data collected from the systematic review + outputs from analyses and models. The link to these...

data set to bioRxiv preprint 'Persistent cross-species SARS-CoV-2 variant infectivity predicted via comparative molecular dynamics simulation

Gregory A Babbitt

April 2022

This is supporting data and software code for the following preprint in bioRxiv Persistent cross-sp...

Code and data of article "Estimating SARS-CoV-2 infections and associated changes in COVID-19 severity and fatality"

Valentina Marziano

June 2023

Code and data used in the journal article "Estimating SARS-CoV-2 infections and associated changes i...

Data for the manuscript "Identification and structural studies of the crucial RNAi target of SARS-CoV-2 through molecular dynamics simulations"

Mallikarjunachari Uppuladinne
Shruti Koulgi
Vinod Jani
Uddhavesh Sonavane
Rajendra Joshi

May 2023

Simulation datasets for manuscript titled "Identification and structural studies of the crucial RNAi...

COVFlow: performing virus phylodynamics analyses from selected SARS-CoV-2 genome sequences

Danesh, Gonché
Boennec, Corentin
Verdurme, Laura
Roussel, Mathilde
Trombert-Paolantoni, Sabine
Visseaux, Benoit
Haim-Boukobza, Stéphanie
Alizon, Samuel

June 2023

This upload contains pipeline configuration files, output data and scripts required to reproduce the...

Data and code for "Rapidly shifting immunologic landscape and severity of SARS-CoV-2 in the Omicron era in South Africa"

Sun, Kaiyuan

October 2022

Data and code for "Rapidly shifting immunologic landscape and severity of SARS-CoV-2 in the Omicron ...

The challenges of containing SARS-CoV-2 via test-trace-and-isolate

Sebastian Contreras
Jonas Dehning
Matthias Loidolt
Johannes Zierenberg
F. Paul Spitzner
Jorge H. Urrea-Quintero
Sebastian B. Mohr
Michael Wilczek
Michael Wibral
Viola Priesemann

November 2020

Code repository for the paper "The challenges of containing SARS-CoV-2 via test-trace-and-isolate

Code and data sharing for manuscript titled "Transmission heterogeneities, kinetics, and controllability of SARS-CoV-2"

Abstract

Extracted data

Code and data sharing for manuscript titled "Transmission heterogeneities, kinetics, and controllability of SARS-CoV-2"

Abstract

Extracted data

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