therensselaeridea/mortalityminder

MortalityMinder: an R-based, multi-view interactive presentation examining county-level factors associated with midlife mortality trends.

mortalityminder's Issues

NOTE CHANGE import rest of the CHR data from 2011. Do not do other years except 2019

Be careful. Just because CHR says it is from a different year doesn't mean that it is.

Create a Bibtext on overleaf (LaTex) to keep track of our Literature Sources.

Here is the link to Overleaf

https://www.overleaf.com/8993264681pvjcfdpgkndn

basic documentation for CDC, RHI, OpenIntro, etc.

Create R Notebook that *does* data imputation

Display one death rate distribution map at a time; user selects by mousing over desired range (above)

See new mockup; User selects time period by mousing over desired range

Find associated social determinants in the app and see what the literature says about them.

A google doc containing a discussion state-based social determinants and their impact on mortality:

https://docs.google.com/document/d/19zj9y9NUIX8_ZF8J2Zz1Bq7Bxwm7EjVVy_4ahvqZL5Y/edit#heading=h.xdd7it2jll85

Create same axis for all cluster plots

Limit social determinants to only those that are actually relevant

Use random forrest instead of kendall's tau to find the association between social determinants and mortality.

Add context specific help capability.

On new mockup: Info icons everywhere to provide explanatory information and user help

Merge new missing value corrected data into main branch for all cause

Examine determinants for Despair for Alabama, Alaska, Arizona and Arkansas and identify literature for them.

Create ability (link, et.al.) to download results of analysis.

Create mockup of State-to-State

Create a mockup of an option to compare ONLY two states. State-county, county-county is out!

https://docs.google.com/presentation/d/1q3ta-CQuuyVD9hQILNiJu8EWABiKouW6/edit#slide=id.g61df3cf768_0_44

On the backburner until current goals are met

Read about NORC and how it may be integrated to the app.

Determinant deep-dive: Click to select detailed view of selected determinant on the right.

NOTE: This was in the June mock-up!

get name map for county health rankings (2011-2019, sheet 2-5)

Make k for k-means code parametric. WE should be able to change easily.

Get research group in touch with Amy Svirsky and set up a meeting for next week

The meeting is today (Sept 25, 2019) at 2:30 PM.

Finalize CHR 2019 to be "perfect"

Front page prototype

"Nationwide" should just be treated like another state

See new mockup

Work on interactive version of Tim's Lattice (be able to toggle between years) [MM_Core]

We want an interactive version of the Nationwide GIF Tim made. The problem is that we want people to be able to choose the year and enter the app through that choice on a Nationwide page. I believe using the code from Tim's Lattice would probably be an easier basis, but that goes under your problem.

Increase font sizes on social determinants graph/plot in nationwide.

Create RDS for "all cause" mortality

Make the maps show which county is which when hovering is used.

On new mockup: Mouse-over tool-tips providing county information: county name, cluster assignment, other useful data

The kendall tau's test on beta 3 is inconsistent with the beta 3 one.

The social determinants on https://shengjin-li.shinyapps.io/beta/ are in consistent with beta 3.
The published app ones are good but the ones.
You can tell becuase Health Outcomes is not picked and health outcomes contains the death rates. It picks all the population stuff. After we fix this we get this fixed, we should remove health outcomes.

Read about papers on deaths of despair about education, bmi, culture, social support, marital status and more.

Create clustering using existing approach -- figure out number of clusters

Make sure to use the analysis code for states. Want them to be consistent.

• CVH

Add pop-ups for information and explanations at various places on every page

Need at least two different types of icons, ie for help (what user should do) and explanation (what something means, e.g. what is a Kendall's test or whatever)

Make a nationwide page.

The code is in the "nationwide_page" branch.

Make the app more responsive and faster.

Redo the graph so that all summaries are on a single axis.

New Mexico + Cancer results in error

When selecting New Mexico and Cancer an error stating "An error has occurred. Check your logs or contact the app author for clarification." shows up

Create pop-up feature for further info in bar plot

Remove outlier from Hawaii

Create a Google Sheet document with all the measures from countyhealthrankings.org

https://docs.google.com/spreadsheets/d/1tmCAfR2Et6_T9eIruQob6iaWwKYSsZ9N/edit?usp=drive_web&ouid=107542215525958288886&dls=true

Examine the results from MM, does any resarch support these.

Figure out why Massachusetts Cardiovascular health has improved

Mass. is now the healthiest state in the US

Make an update mockup in google slides of the state page to make UI clearer

Create mockup of help capability that explains social determinant

Identify functions in Loader_* files that are required elsewhere in code and make them accessible

Some functions defined in Loader code (esp. in Loader_GEO.R) are required elsewhere (e.g. in the state-level plotting stacks)

Add help capability that explains the social determinants.

On new mockup: Short definition/explanation of selected determinant, with link to more detailed explanation

Create short name vs long name cross-reference

Learn missing value methods from spring 2019

Upload final imputed data to github

Remove the white outlines around the counties on the nationwide page.

Put READMEs at each level of code hierarchy (ie in each sub-directory) explaining what that level of code is doing

Every sub-directory should have a README.md explaining what the code is doing in that sub-directory

Create help buttons that provide explanations for various things on the app.

Do a statewide analysis to get Kendall's Taus for all social determinants for each state.

The code and results are in the "statewide_taus" branch.