Replication Data for: Epidemiology of COVID-19 infections on routine PCR and serology testing in Coastal Kenya

Version 3.0
Replication Data for: Epidemiology of COVID-19 infections on routine PCR and serology testing in Coastal Kenya
Nyagwange, James; Ndwiga, Leonard; Muteru, Kelvin; Wamae, Kevin; Tuju, James; COVID testing team; Kutima, Bernadette; Gitonga, John; Karanja, Henry; Mugo, Daisy; Kasera, Kadondi; Amoth, Patrick; Murunga, Nickson; Babu, Lawrence; Otieno, Edward; Githinji, George; Nokes, James; Tsofa, Benjamin; Orindi, Benedict; Barasa, Edwine; Warimwe, George; Agoti, Charles N.; Bejon, Philip; Ochola-Oyier, Lynette Isabella, 2022, "Replication Data for: Epidemiology of COVID-19 infections on routine PCR and serology testing in Coastal Kenya", https://doi.org/10.7910/DVN/BF3BEF, Harvard Dataverse, V3, UNF:6:1VUXWjqkW+CfajVT4hCf9Q== [fileUNF]
Learn about Data Citation Standards.
Dataset Metrics
50 Downloads
Description

Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) infection began in Wuhan, China in December 2019 and rapidly spread around the world causing a disease called the Corona virus disease 2019 (COVID-19). The first case of COVID-19 was detected in the Kenyan Coast in 21st March 2020. Since then KEMRI-Wellcome Trust Research Programme has been the main testing site for the Coastal part of Kenya. Prior to testing, each participant was required to fill a case investigation form (CIF) which was later used in generating our datasets. The first dataset: 1) "Combined_Covid_EpiDataset" contains the characteristics of each of the 100665 cases and has been used to describe the Epidemiology of SARS-CoV-2 infections by describing the age, gender, prevalence of infections and the proportion of symptomatic and asymptomatic cases. The second dataset: "Covid_serodataset" containing 2458 observations was used to describe monthly Sero-epidemiology of individuals who were either SARS-CoV-2 positive or negative at the time of testing. Note: this dataset contains counties that are outside the Coastal part of Kenya which have been filtered off in the code

Subject Medicine, Health and Life Sciences
Keyword Asymptomatic, symptomatic, serology, serostatus, seroprevalence
Notes

Data Access: Restricted

Access to these data requires submission of a formal request for consideration by our Data Governance Committee.

How to request
  1. Download and complete the data request form
  2. Email completed data request form to the Data Governance Committee at dgc@kemri-wellcome.org

License: Creative Commons Attribution 4.0 International

License/Data Use Agreement

Custom Dataset Terms

Dataset Terms  

Our Community Norms as well as good scientific practices expect that proper credit is given via citation. Please use the data citation shown on the dataset page.

Custom Dataset Terms - the following Custom Dataset Terms have been defined for this dataset.

This data is licensed under the Creative Commons Attribution 4.0 International

For more information on these data, please contact the author(s) OR the data governance office via this email address: dgc@kemri-wellcome.org

Publications based on this data collection should acknowledge this source by means of bibliographic citation.
Restricted Files + Terms of Access  

There are 8 restricted files in this dataset.

Access to data is restricted as it contains information that can potentially identify individuals. For access to data and more detailed information beyond the metadata and documentation provided, please send a signed data request form to [dgc@kemri-wellcome.org ]. Click to download Data Request Form

Users may request access to files.

Guestbook  

The following guestbook will prompt a user to provide additional information when downloading a file.

KWTRP Dataverse guestbook

Edit File

This file has already been deleted (or replaced) in the current version. It may not be edited.

Restrict Access

Restricting limits access to published files. People who want to use the restricted files can request access by default. If you disable request access, you must add information about access to the Terms of Access field.

Learn about restricting files and dataset access in the User Guide.

Enable access request
You must enable request access or add terms of access to restrict file access.
Save Changes
Edit Embargo

The selected file or files have already been published. Contact an administrator to change the embargo date or reason of the file or files.
Edit Retention Period

The selected file or files have already been published. Contact an administrator to change the retention period date or reason of the file or files.
Delete Files

The file will be deleted after you click on the Delete button.

Files will not be removed from previously published versions of the dataset.

Select File(s)

Please select one or more files.

Share Dataset

Share this dataset on your favorite social media networks.

Continue
Dataset Citations

Citations for this dataset are retrieved from Crossref via DataCite using Make Data Count standards. For more information about dataset metrics, please refer to the User Guide.

Sorry, no citations were found.
Inaccessible Files Selected

The selected file(s) may not be downloaded because you have not been granted access or the file(s) have a retention period that has expired or the files can only be transferred via Globus.

You may request access to any restricted file(s) by clicking the Request Access button.

Ineligible Files Selected

The selected file(s) may not be transferred because you have not been granted access or the file(s) have a retention period that has expired or the files are not Globus accessible.

You may request access to any restricted file(s) by clicking the Request Access button.

Download Options

The files selected are too large to download as a ZIP.

You can select individual files that are below the 15.0 GB download limit from the files table, or use the Data Access API for programmatic access to the files.

Select File(s)

Please select a file or files to be downloaded.

Inaccessible Files Selected

The selected file(s) may not be downloaded because you have not been granted access or the file(s) have a retention period that has expired.

Click Continue to download the files you have access to download.

Ineligible Files Selected

Some file(s) cannot be transferred. (They are restricted, embargoed, with an expired retention period, or not Globus accessible.)

Click Continue to transfer the elligible files.

Delete Dataset

Are you sure you want to delete this dataset and all of its files? You cannot undelete this dataset.

Delete Draft Version

Are you sure you want to delete this draft version? Files will be reverted to the most recently published version. You cannot undelete this draft.

Unpublished Dataset Preview URL

Preview URL can only be used with unpublished versions of datasets.

Unpublished Dataset Preview URL

Are you sure you want to disable the Preview URL? If you have shared the Preview URL with others they will no longer be able to use it to access your unpublished dataset.

Delete Files

The file(s) will be deleted after you click on the Delete button.

Files will not be removed from previously published versions of the dataset.

Compute

This dataset contains restricted files you may not compute on because you have not been granted access.

Deaccession Dataset

Are you sure you want to deaccession? This is permanent and the selected version(s) will no longer be viewable by the public.

Deaccession Dataset

Are you sure you want to deaccession this dataset? This is permanent an it will no longer be viewable by the public.

Version Differences Details

Please select two versions to view the differences.

Version Differences Details
 
Version:
Last Updated:
Version:
Last Updated:
Select File(s)

Please select a file or files for access request.

Select File(s)

Embargoed files cannot be accessed. Please select an unembargoed file or files for your access request.

Edit Tags

Select existing file tags or create new tags to describe your files. Each file can have more than one tag.

Request Access

  You need to Sign Up or Log In to request access.

Dataset Terms

Please confirm and/or complete the information needed below in order to request access to files in this dataset.

This dataset is made available under the following terms. Please confirm and/or complete the information needed below in order to continue.

Our Community Norms as well as good scientific practices expect that proper credit is given via citation. Please use the data citation shown on the dataset page.

Custom Dataset Terms - the following Custom Dataset Terms have been defined for this dataset.

This data is licensed under the Creative Commons Attribution 4.0 International

For more information on these data, please contact the author(s) OR the data governance office via this email address: dgc@kemri-wellcome.org

Publications based on this data collection should acknowledge this source by means of bibliographic citation.

Preview Guestbook

Upon downloading files the guestbook asks for the following information.

Account Information

Package File Download

Use the Download URL in a Wget command or a download manager to download this package file. Download via web browser is not recommended. User Guide - Downloading a Dataverse Package via URL

https://qa.dataverse.org/api/access/datafile/

Compute Batch
Clear Batch
Dataset Persistent Identifier Change Compute Batch
Compute Batch
Submit for Review

You will not be able to make changes to this dataset while it is in review.

Publish Dataset

Are you sure you want to republish this dataset?

By default datasets are published with the CC0-“Public Domain Dedication” waiver. Learn more about the CC0 waiver here.

To publish with custom Terms of Use, click the Cancel button and go to the Terms tab for this dataset.

Select if this is a minor or major version update.

Publish Dataset

This dataset cannot be published until Coronavirus (COVID-19) Data is published by its administrator.

Publish Dataset

This dataset cannot be published until Coronavirus (COVID-19) Data and KWTRP Research Data Repository are published.

Return to Author

Return this dataset to contributor for modification. The reason for return entered below will be sent by email to the author.

Curation Status History
StatusDateAssigner
No records found.
Add/Edit a Version Note
Styled Citation