Merge pull request #771 from cmu-delphi/release/delphi-epidata-0.3.2

Release Delphi Epidata 0.3.2

Author: krivard

.bumpversion.cfg

@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 0.3.1
+current_version = 0.3.2
 commit = False
 tag = False
 

docs/api/covidcast-signals/indicator-combination-inactive.md

@@ -200,3 +200,30 @@ The resampling method for each input source is as follows:
   the reported proportion and sample size.
 * *Google Health Trends:* Because we do not have access to the sampling
   distribution, we do not resample this signal.
+
+## Compositional Signals: Confirmed Cases and Deaths
+
+* **Earliest issue available:** 7 July 2020
+* **Number of data revisions since 19 May 2020:** 1
+* **Date of last change:** [12 October 2020](../covidcast_changelog.md#indicator-combination)
+* **Available for:** county, msa, hrr, state (see [geography coding docs](../covidcast_geography.md))
+* **Time type:** day (see [date format docs](../covidcast_times.md))
+
+These signals combine the cases and deaths data from JHU and USA Facts. This is
+a straight composition: the signals below use the [JHU signal data](jhu-csse.md)
+for Puerto Rico, and the [USA Facts signal data](usa-facts.md) everywhere else.
+Consult each signal's documentation for information about geographic reporting,
+backfill, and other limitations.
+
+These signals were updated daily until November 18, 2021.
+
+| Signal | 7-day average signal | Description |
+| --- | --- | --- |
+| `confirmed_cumulative_num` |  | Cumulative number of confirmed COVID-19 cases <br/> **Earliest date available:** 2020-02-20 |
+| `confirmed_cumulative_prop` |  | Cumulative number of confirmed COVID-19 cases per 100,000 population <br/> **Earliest date available:** 2020-02-20 |
+| `confirmed_incidence_num` | `confirmed_7dav_incidence_num` | Number of new confirmed COVID-19 cases, daily <br/> **Earliest date available:** 2020-02-20 |
+| `confirmed_incidence_prop` | `confirmed_7dav_incidence_prop` | Number of new confirmed COVID-19 cases per 100,000 population, daily <br/> **Earliest date available:** 2020-02-20 |
+| `deaths_cumulative_num` |  | Cumulative number of confirmed deaths due to COVID-19 <br/> **Earliest date available:** 2020-02-20 |
+| `deaths_cumulative_prop` |  | Cumulative number of confirmed due to COVID-19, per 100,000 population <br/> **Earliest date available:** 2020-02-20 |
+| `deaths_incidence_num` | `deaths_7dav_incidence_num` | Number of new confirmed deaths due to COVID-19, daily <br/> **Earliest date available:** 2020-02-20 |
+| `deaths_incidence_prop` | `deaths_7dav_incidence_prop` | Number of new confirmed deaths due to COVID-19 per 100,000 population, daily <br/> **Earliest date available:** 2020-02-20 |

docs/api/covidcast-signals/indicator-combination.md

@@ -88,12 +88,13 @@ There is a lag in time between when the death occurred and when the death
 certificate is completed, submitted to NCHS, and processed for reporting
 purposes. The death counts for recent weeks are continually revised and may
 increase or decrease as new and updated death certificate data are received from
-the states by NCHS. This delay can range from 1 to 8 weeks or even more.
-Some states report deaths on a daily basis, while other states report deaths weekly
-or monthly. State vital record reporting may also be affected or delayed by
-COVID-19 related response activities which make death counts not comparable
-across states. We check for updates reported by NCHS every weekday but will
-report the signals weekly (on Monday).
+the states by NCHS. This delay can range from 1 to 8 weeks or even more; review
+[this detailed analysis of reporting delays](https://doi.org/10.1057/s41271-021-00309-7)
+for more information. Some states report deaths on a daily basis, while other 
+states report deaths weekly or monthly. State vital record reporting may also be 
+affected or delayed by COVID-19 related response activities which make death 
+counts not comparable across states. We check for updates reported by NCHS every
+weekday but will report the signals weekly (on Monday).
 
 ## Source and Licensing
 

docs/api/covidcast-signals/nchs-mortality.md

@@ -29,7 +29,7 @@ Attribution license](https://creativecommons.org/licenses/by/4.0/):
 
 * [Doctor Visits](covidcast-signals/doctor-visits.md)
 * [Hospital Admissions](covidcast-signals/hospital-admissions.md)
-* [Indicator Combination](covidcast-signals/indicator-combination.md): signals
+* [Indicator Combination](covidcast-signals/indicator-combination-inactive.md): signals
   with names beginning `nmf_*`
 * [Quidel](covidcast-signals/quidel.md)
 * [Symptom Surveys](covidcast-signals/fb-survey.md)
@@ -54,7 +54,7 @@ These data streams are essentially mirrors of their respective sources, and are
 published here subject to the original license provided by the source:
 
 * [Google Health Trends](covidcast-signals/ght.md)
-* [Indicator Combination](covidcast-signals/indicator-combination.md): cases and
+* [Indicator Combination](covidcast-signals/indicator-combination-inactive.md): cases and
   deaths signals
 * [JHU Cases and Deaths](covidcast-signals/jhu-csse.md)
 * [SafeGraph Mobility](covidcast-signals/safegraph.md)

docs/api/covidcast_licensing.md

@@ -43,10 +43,10 @@ tool](https://delphi.cmu.edu/covidcast/export/):
 | Early Indicators | COVID-Like Symptoms in Community | [`fb-survey`](covidcast-signals/fb-survey.md)                         | `smoothed_hh_cmnty_cli`          |
 | Late Indicators  | COVID Antigen Test Positivity (Quidel) | [`quidel`](covidcast-signals/quidel.md)                         | `covid_ag_smoothed_pct_positive` |
 | Late Indicators  | Claims-Based COVID Hospital Admissions | [`hospital-admissions`](covidcast-signals/hospital-admissions.md) | `smoothed_adj_covid19_from_claims` |
-| Late Indicators  | Cases                            | [`indicator-combination`](covidcast-signals/indicator-combination.md) | `confirmed_7dav_incidence_num`   |
-| Late Indicators  | Cases per 100,000 People         | [`indicator-combination`](covidcast-signals/indicator-combination.md) | `confirmed_7dav_incidence_prop`  |
-| Late Indicators  | Deaths                           | [`indicator-combination`](covidcast-signals/indicator-combination.md) | `deaths_7dav_incidence_num`      |
-| Late Indicators  | Deaths per 100,000 People        | [`indicator-combination`](covidcast-signals/indicator-combination.md) | `deaths_7dav_incidence_prop`     |
+| Late Indicators  | Cases                            | [`jhu-csse`](covidcast-signals/jhu-csse.md) | `confirmed_7dav_incidence_num`   |
+| Late Indicators  | Cases per 100,000 People         | [`jhu-csse`](covidcast-signals/jhu-csse.md) | `confirmed_7dav_incidence_prop`  |
+| Late Indicators  | Deaths                           | [`jhu-csse`](covidcast-signals/jhu-csse.md) | `deaths_7dav_incidence_num`      |
+| Late Indicators  | Deaths per 100,000 People        | [`jhu-csse`](covidcast-signals/jhu-csse.md) | `deaths_7dav_incidence_prop`     |
 
 ## All Available Sources and Signals
 

docs/api/covidcast_signals.md

@@ -15,7 +15,7 @@ Epidata <- (function() {
   # API base url
   BASE_URL <- 'https://delphi.cmu.edu/epidata/api.php'
 
-  client_version <- '0.3.1'
+  client_version <- '0.3.2'
 
   # Helper function to cast values and/or ranges to strings
   .listitem <- function(value) {

src/client/delphi_epidata.R

@@ -22,7 +22,7 @@
   }
 })(this, function (exports, fetchImpl, jQuery) {
   const BASE_URL = "https://delphi.cmu.edu/epidata/";
-  const client_version = "0.3.1";
+  const client_version = "0.3.2";
 
   // Helper function to cast values and/or ranges to strings
   function _listitem(value) {

src/client/delphi_epidata.js

@@ -2,7 +2,7 @@
   "name": "delphi_epidata",
   "description": "Delphi Epidata API Client",
   "authors": "Delphi Group",
-  "version": "0.3.1",
+  "version": "0.3.2",
   "license": "MIT",
   "homepage": "https://github.com/cmu-delphi/delphi-epidata",
   "bugs": {

src/client/packaging/npm/package.json

@@ -1,4 +1,4 @@
 from .delphi_epidata import Epidata
 
 name = 'delphi_epidata'
-__version__ = '0.3.1'
+__version__ = '0.3.2'