Code Review for HourlyTemp_Stroke Analysis
Readme
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Before running any code, open the 0_01 scripts and set the CaseName to 'stroke' if you are using real data or 'fake' if you are creating synthetic data. Make sure to also set the user for the HourlyTempStroke/Scripts/0_01 script.
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These 0_01 scripts are sources at the beginning of all other scripts but only if you haven't already run it during the R session
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You need to install 2 packages: here and pacman. After that, the 0_01 script will take care of installing and loading all other packages.
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Folder Structure lvl 1: Project (eg Temp_CVD_Analysis) lvl 2: Analysis (eg TempVar_mi) lvl 3: Components (Data, Scripts, Outputs)
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Prefix categories Folder: DataPrep 0_ Setting up the R environment a_ Prepare hourly weather data from raw gribs from nldas b_ Extract cases from SPARCS data c_ Create case-crossover dataset and assign exposure SubFolder: Functions note that these scripts are not actually functions, just because of memory constraints, so they are sourced each time you want to run them
Folder: TempVar_MI 0_ Setting up the R environment A_ Data processing B_ All descriptive analyses and summary (no health models) C_ All main health models (selecting model constraints, etc) D_ Sensitivity analyses E_ Exploratory analyses that may be new inquiries (not necessarily part of paper) F_ Plotting models or similar post-modeling processing (not necessarily part of paper) G_ Final versions of plots, tables, numeric results for manuscript H_ Other Note that B, E, F, and H are not included in the GitHub because they did not contribute to the manuscript Most of the descriptive analyses wound up in the G_ scripts. SubFolder: Functions note that these scripts are actually functions, and c functions depend on each other (c3 needs c2; c2 needs c1)
- Naming Conventions letter_00 refers to scripts that only generate a function. functions are sourced in the 0_01 scripts Sometimes a function is used for two different clusters of code, esp. C & D. scripts should be written in camelCase