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Commit 4fabcb65 authored by Thomas  OBADIA's avatar Thomas OBADIA :speech_balloon:
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Add README sections about the 02_OBSERVATIONAL sub-project.

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...@@ -121,6 +121,21 @@ All PvSTATEM partner are welcome to propose new contributions to this repository ...@@ -121,6 +121,21 @@ All PvSTATEM partner are welcome to propose new contributions to this repository
6. Preserve overall code structure by favoring `tidyverse` syntax and `ggplot` plots over base R calls. Base R is acceptable but should be refactored into `tidyverse` syntax as soon as possible, 6. Preserve overall code structure by favoring `tidyverse` syntax and `ggplot` plots over base R calls. Base R is acceptable but should be refactored into `tidyverse` syntax as soon as possible,
7. Document all scripts and methods both inline (comments) and in this README.md (respecting the template just below) 7. Document all scripts and methods both inline (comments) and in this README.md (respecting the template just below)
## 02_OBSERVATIONAL
Set of methods used to explore and analyze the content of the **Observational Study** databases hosted by partner institutions.
### R environment setup and database extraction
#### Scripts involed
* [OBSERVATIONAL_00_R_environment.R](<02_OBSERVATIONAL/OBSERVATIONAL_00_R_environment.R>): load all required packages (or complain they are missing) and sets global variables for the 02_OBSERVATIONAL project.
* [OBSERVATIONAL_01_dump_REDCap_database.R](<02_OBSERVATIONAL/OBSERVATIONAL_01_dump_REDCap_database.R>): extract database from the REDCap server that is passed into the `RCON_OBSERVATIONAL` variable.
#### Outputs
* `dat_observational_raw`: the raw database from REDCap.
## README.md template ## README.md template
The README.md should respect the following conventions: The README.md should respect the following conventions:
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