This dataset is now archived and purely historical. The state of Pennsylvania stopped updating the source data at the end of June, 2023.

Weekly archive of some State of Pennsylvania datasets found in this list: https://data.pa.gov/browse?q=vaccinations

For most of these datasets, the "date_saved" field is the date that the WPRDC pulled the data from the state data portal and the archive combines all the saved records into one table. The exception to this is the "COVID-19 Vaccinations by Day by County of Residence Current Health (archive)" which is already published by the state as an entire history.

The "date_updated" field is based on the date that the "updatedAt" field from the corresponding data.pa.gov dataset. Changes to this field have turned out to not be a good indicator of whether records have updated, which is why we are archiving this data on a weekly basis without regard to the "updatedAt" value. The "date_saved" field is the one you should sort on to see the variation in vaccinations over time.

Most of the source tables have gone through schema changes or expansions. In some cases, we've kept the old archives under a separate resource with something like "[Orphaned Schema]" added to the resource name. In other cases, we've adjusted our schema to accommodate new column names, but there will be a date range during which the new columns have null values because we did not start pulling them until we became aware of them.

Support for Health Equity datasets and tools provided by Amazon Web Services (AWS) through their Health Equity Initiative.

Weekly archive of some State of Pennsylvania datasets found in this list: https://data.pa.gov/browse?q=vaccinations

For most of these datasets, the "date_saved" field is the date that the WPRDC pulled the data from the state data portal and the archive combines all the saved records into one table. The exception to this is the "COVID-19 Vaccinations by Day by County of Residence Current Health (archive)" which is already published by the state as an entire history.

The "date_updated" field is based on the date that the "updatedAt" field from the corresponding data.pa.gov dataset. Changes to this field have turned out to not be a good indicator of whether records have updated, which is why we are archiving this data on a weekly basis without regard to the "updatedAt" value. The "date_saved" field is the one you should sort on to see the variation in vaccinations over time.

Most of the source tables have gone through schema changes or expansions. In some cases, we've kept the old archives under a separate resource with something like "[Orphaned Schema]" added to the resource name. In other cases, we've adjusted our schema to accommodate new column names, but there will be a date range during which the new columns have null values because we did not start pulling them until we became aware of them.

Support for Health Equity datasets and tools provided by Amazon Web Services (AWS) through their Health Equity Initiative.

COVID-19 Cases information is reported through the Pennsylvania State Department’s National Electronic Disease Surveillance System (PA-NEDSS). As new cases are passed to the Allegheny County Health Department they are investigated by case investigators. During investigation some cases which are initially determined by the State to be in the Allegheny County jurisdiction may change, which can account for differences between publication of the files on the number of cases, deaths and tests. Additionally, information is not always reported to the State in a timely manner, delays can range from days to weeks, which can also account for discrepancies between previous and current files. Test and Case information will be updated daily. This resource contains individuals who received a COVID-19 test and individuals whom are probable cases. Every day, these records are overwritten with updates. Each row in the data reflects a person that is tested, not tests that are conducted. People that are tested more than once will have their testing and case data updated using the following rules:

1. Positive tests overwrite negative tests.
2. Polymerase chain reaction (PCR) tests overwrite antibody or antigen (AG) tests.
3. The first positive PCR test is never overwritten. Data collected from additional tests do not replace the first positive PCR test.

Note: On April 4th 2022 the Pennsylvania Department of Health no longer required labs to report negative AG tests. Therefore aggregated counts that included AG tests have been removed from the Municipality/Neighborhood files going forward. Versions of this data up to this cut-off have been retained as archived files.

Individual Test information is also updated daily. This resource contains the details and results of individual tests along with demographic information of the individual tested. Only PCR and AG tests are included. Every day, these records are overwritten with updates. This resource should be used to determine positivity rates.

The remaining datasets provide statistics on death demographics. Demographic, municipality and neighborhood information for deaths are reported on a weekly schedule and are not included with individual cases or tests. This has been done to protect the privacy and security of individuals and their families in accordance with the Health Insurance Portability and Accountability Act (HIPAA). Municipality or City of Pittsburgh Neighborhood is based off the geocoded home address of the individual tested.

Individuals whose home address is incomplete may not be in Allegheny County but whose temporary residency, work or other mitigating circumstance are determined to be in Allegheny County by the Pennsylvania Department of Health are counted as "Undefined".

Since the start of the pandemic, the ACHD has mapped every day’s COVID tests, cases, and deaths to their Allegheny County municipality and neighborhood. Tests were mapped to patient address, and if this was not available, to the provider location. This has recently resulted in apparent testing rates that exceeded the populations of various municipalities -- mostly those with healthcare providers. As this was brought to our attention, the health department and our data partners began researching and comparing methods to most accurately display the data. This has led us to leave those with missing home addresses off the map. Although these data will still appear in test, case and death counts, there will be over 20,000 fewer tests and almost 1000 fewer cases on the map. In addition to these map changes, we have identified specific health systems and laboratories that had data uploading errors that resulted in missing locations, and are working with them to correct these errors.

Due to minor discrepancies in the Municipal boundary and the City of Pittsburgh Neighborhood files individuals whose City Neighborhood cannot be identified are be counted as “Undefined (Pittsburgh)”.

On May 19, 2023, with the rescinding of the COVID-19 public health emergency, changes in data and reporting mechanisms prompted a change to an annual data sharing schedule for tests, cases, hospitalizations, and deaths. Dates for annual release are TBD. The weekly municipal counts and individual data produced before this changed are maintained as archive files.

Support for Health Equity datasets and tools provided by Amazon Web Services (AWS) through their Health Equity Initiative.

View daily updates and historical trends for Pennsylvania Coronavirus Cases Per Day (DISCONTINUED). Source: Center for Disease Control and Prevention. Tra…

COVID-19 Cases information is reported through the Pennsylvania State Department’s National Electronic Disease Surveillance System (PA-NEDSS). As new cases are passed to the Allegheny County Health Department they are investigated by case investigators. During investigation some cases which are initially determined by the State to be in the Allegheny County jurisdiction may change, which can account for differences between publication of the files on the number of cases, deaths and tests. Additionally, information is not always reported to the State in a timely manner, delays can range from days to weeks, which can also account for discrepancies between previous and current files. Test and Case information will be updated daily. This resource contains individuals who received a COVID-19 test and individuals whom are probable cases. Every day, these records are overwritten with updates. Each row in the data reflects a person that is tested, not tests that are conducted. People that are tested more than once will have their testing and case data updated using the following rules: Positive tests overwrite negative tests. Polymerase chain reaction (PCR) tests overwrite antibody or antigen (AG) tests. The first positive PCR test is never overwritten. Data collected from additional tests do not replace the first positive PCR test. Note: On April 4th 2022 the Pennsylvania Department of Health no longer required labs to report negative AG tests. Therefore aggregated counts that included AG tests have been removed from the Municipality/Neighborhood files going forward. Versions of this data up to this cut-off have been retained as archived files. Individual Test information is also updated daily. This resource contains the details and results of individual tests along with demographic information of the individual tested. Only PCR and AG tests are included. Every day, these records are overwritten with updates. This resource should be used to determine positivity rates. The remaining datasets provide statistics on death demographics. Demographic, municipality and neighborhood information for deaths are reported on a weekly schedule and are not included with individual cases or tests. This has been done to protect the privacy and security of individuals and their families in accordance with the Health Insurance Portability and Accountability Act (HIPAA). Municipality or City of Pittsburgh Neighborhood is based off the geocoded home address of the individual tested. Individuals whose home address is incomplete may not be in Allegheny County but whose temporary residency, work or other mitigating circumstance are determined to be in Allegheny County by the Pennsylvania Department of Health are counted as "Undefined". Since the start of the pandemic, the ACHD has mapped every day’s COVID tests, cases, and deaths to their Allegheny County municipality and neighborhood. Tests were mapped to patient address, and if this was not available, to the provider location. This has recently resulted in apparent testing rates that exceeded the populations of various municipalities -- mostly those with healthcare providers. As this was brought to our attention, the health department and our data partners began researching and comparing methods to most accurately display the data. This has led us to leave those with missing home addresses off the map. Although these data will still appear in test, case and death counts, there will be over 20,000 fewer tests and almost 1000 fewer cases on the map. In addition to these map changes, we have identified specific health systems and laboratories that had data uploading errors that resulted in missing locations, and are working with them to correct these errors. Due to minor discrepancies in the Municipal boundary and the City of Pittsburgh Neighborhood files individuals whose City Neighborhood cannot be identified are be counted as “Undefined (Pittsburgh)”.

Weekly updates have finished with the June 28th update. “Note: Beginning 7/13/2022, the hospitals are no longer reporting data on airborne isolation beds resulting in null values being displayed for the airborne isolation bed metrics.” This dataset contains aggregate hospitalization data related to COVID-19 patient which includes availability of ICU beds, patients on ventilators, ventilators in use, and total patients hospitalized data at the state and county level for Pennsylvania residents.
Data will be updated between 11:30 am to 1:30pm each Wednesday.

Weekly updates have finished with the June 28th update. Some information may be found here: https://covid.cdc.gov/covid-data-tracker/#maps_new-admissions-rate-state
This dataset contains aggregate COVID-19 case counts and rates by date of first report for all counties in Pennsylvania and for the state as a whole. Counts include both confirmed and probable cases as defined by the Council of State and Territorial Epidemiologists (CSTE). At present, a person is counted as a case only once. Note that case counts by date of report are influenced by a variety of factors, including but not limited to testing availability, test ordering patterns (such as day of week patterns), labs reporting backlogged test results, and mass screenings in nursing homes, workplaces, schools, etc. Case reports received without a patient address are assigned to the county of the ordering provider or facility based on provider zip code. Cases reported with a residential address that does not match to a known postal address per the commonwealth geocoding service are assigned to a county based on the zip code of residence. Many zip codes cross county boundaries so there is some degree of misclassification of county. All counts may change on a daily basis due to reassignment of jurisdiction, removal of duplicate case reports, correction of errors, and other daily data cleaning activities. Downloaded data represents the best information available as of the previous day.
Data will be updated between 11:30 am to 1:30pm each Wednesday.

Time enabled view of Covid-19 Cases by county across PA from 3/16 to 4/20. Data Source: PA Dept of Health

The Center for Maps & Geospatial Information provides this dashboard solely for educational purposes. This dashboard is not a substitute for medical advice, and commercial use of the dashboard is strictly prohibited. The Center for Maps & Geospatial Information makes no representations and extends no warranties of any kind, either express or implied, and explicitly disclaims any representation or warranty, including with respect to any accuracy, completeness, merchantability, fitness for a particular purpose, non-infringement of intellectual property rights, and the absence of any latent defects, whether or not discoverable.Data is sourced from the Pennsylvania Department of Health. Current Coronavirus cases in Pennsylvania. Archival Coronavirus cases

This dataset contains aggregate COVID-19 case counts by race by county of first report for all counties in Pennsylvania. Counts include both confirmed and probable cases as defined by the Council of State and Territorial Epidemiologists (CSTE). Suppression applies for quantities 1-4.

Data only includes information reported to PA-NEDSS, Pennsylvania National Electronic Disease Surveillance System.

This dataset contains aggregate death data at the state and county level for Pennsylvania residents. The data are displayed by county, date, death counts, averages, rates based on population. Pennsylvania statewide numbers are listed with Pennsylvania named as the county for the statewide totals. Do not add up the entire file (all rows) or counts will be duplicated.

Covid-19 PA Case Data by County and Region with map and table selections.

Data from Johns Hopkins University (https://www.arcgis.com/home/item.html?id=628578697fb24d8ea4c32fa0c5ae1843)

Intercept and holiday coefficients with 95% confidence intervals based on robust standard errors.

Day of week and county demographic coefficients and 95% confidence intervals based on robust standard errors.

This Project Tycho dataset includes a CSV file with COVID-19 data reported in UNITED STATES OF AMERICA: 2019-12-30 - 2021-07-31. It contains counts of cases, deaths, hospitalizations, and demographics. Data for this Project Tycho dataset comes from: "Alabama Department of Public Health Website Dashboard", "Arkansas Department of Health COVID-19 Website Dashboard", "California Health and Human Services Open Data Portal, California Department of Public Health COVID-19 Data", "Colorado Department of Public Health and Environment Open Data Website", "Connecticut Open Data Website, Department of Public Health COVID-19 Data", "Delaware Environmental Public Health Tracking Network, Delaware Health and Social Services Website", "Georgia Department of Public Health Website", "Illinois Department of Public Health Website", "Indiana Data Hub Website, Indiana State Department of Health COVID-19 Data", "COVID-19 Data Repository by the Center for Systems Science and Engineering (CSSE) at Johns Hopkins University", "Kentucky Department of Public Health COVID-19 Website Dashboard", "Maine Center for Disease Control & Prevention; Division of the Maine Department of Health and Human Services Website", "Maryland Department of Health COVID-19 Website Dashboard", "Minnesota Department of Health COVID-19 Website Dashboard", "Montana Department of Health & Human Services COVID-19 Website Dashboard", "New York State Department of Health Data Website", "COVID-19 Data Repository by The New York Times", "Ohio Department of Health COVID-19 website", "Pennsylvania Department of Health Data Website", "Tennessee Department of Health Website", "Texas Department of Health Services Website", "United States Centers for Disease Control and Prevention, COVID-19 Response", "Vermont Department of Health, Vermont Center for Geographic Information Open Geodata Portal", "Virginia Department of Health Website", "European Centre for Disease Prevention and Control Website", "World Health Organization COVID-19 Dashboard". The data have been pre-processed into the standard Project Tycho data format v1.1.

The following dataset provides facility-level data for hospital utilization aggregated on a weekly basis (Friday to Thursday). These are derived from reports with facility-level granularity across two main sources: (1) HHS TeleTracking, and (2) reporting provided directly to HHS Protect by state/territorial health departments on behalf of their healthcare facilities.

The hospital population includes all hospitals registered with Centers for Medicare & Medicaid Services (CMS) as of June 1, 2020. It includes non-CMS hospitals that have reported since July 15, 2020. It does not include psychiatric, rehabilitation, Indian Health Service (IHS) facilities, U.S. Department of Veterans Affairs (VA) facilities, Defense Health Agency (DHA) facilities, and religious non-medical facilities.

For a given entry, the term “collection_week” signifies the start of the period that is aggregated. For example, a “collection_week” of 2020-11-20 means the average/sum/coverage of the elements captured from that given facility starting and including Friday, November 20, 2020, and ending and including reports for Thursday, November 26, 2020.

Reported elements include an append of either “_coverage”, “_sum”, or “_avg”.

A “_coverage” append denotes how many times the facility reported that element during that collection week. A “_sum” append denotes the sum of the reports provided for that facility for that element during that collection week. A “_avg” append is the average of the reports provided for that facility for that element during that collection week. The file will be updated weekly. No statistical analysis is applied to impute non-response. For averages, calculations are based on the number of values collected for a given hospital in that collection week. Suppression is applied to the file for sums and averages less than four (4). In these cases, the field will be replaced with “-999,999”.

This data is preliminary and subject to change as more data become available. Data is available starting on July 31, 2020.

Sometimes, reports for a given facility will be provided to both HHS TeleTracking and HHS Protect. When this occurs, to ensure that there are not duplicate reports, deduplication is applied according to prioritization rules within HHS Protect.

For influenza fields listed in the file, the current HHS guidance marks these fields as optional. As a result, coverage of these elements are varied.

Context

X-ray samples of COVID-19 were retrieved from different sources for the unavailability of a large specific dataset. Firstly, a total 1401 samples of COVID-19 were collected using GitHub repository [1] , [2] , the Radiopaedia [3] , Italian Society of Radiology (SIRM) [4] , Figshare data repository websites [5] , [6] . Then, 912 augmented images were also collected from Mendeley instead of using data augmentation techniques explicitly [7] . Finally, 2313 samples of normal and pneumonia cases were obtained from Kaggle [8] , [9] .

References: [1]https://arxiv.org/abs/2003.11597 [2]https://github.com/agchung [3]https://radiopaedia.org/?lang=gb [4]https://www.sirm.org/en/category/articles/covid-19-database/ [5]https://figshare.com/articles/dataset/COVID-19_Chest_X-Ray_Image_Repository/12580328/2 [6]https://figshare.com/articles/COVID-19_Image_Repository/12275009/1 [7]https://data.mendeley.com/datasets/2fxz4px6d8/4 [8]https://www.kaggle.com/paultimothymooney/chest-xray-pneumonia [9]https://www.kaggle.com/nih-chest-xrays/data

Content

The dataset is organized into 3 folders (covid, pneumonia , normal) which contain chest X-ray posteroanterior (PA) images. A total of 6939 samples were used in the experiment, where 2313 samples were used for each case.

Temperature coefficients and 95% confidence intervals.

Attendance at pa-i-porta and Queen’s gala dinner MGEs and number of contacts (k) to obtain expected cases of COVID-19 compared with observed cases from the formula of Tupper and co-authors [63].

Coefficients and 95% confidence intervals based on robust standard errors for the excess zero model.