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| @@ -55,7 +55,7 @@ Having the data ready as simple csv is useful to always be able to start from th | |||||
| This step consists mostly of "non-destructive" data management: assign types to columns (factors with correct/human readable levels, dates, etc.), correct/censor obviously abnormal values and errors), transform between *long* and *wide* format, etc. | This step consists mostly of "non-destructive" data management: assign types to columns (factors with correct/human readable levels, dates, etc.), correct/censor obviously abnormal values and errors), transform between *long* and *wide* format, etc. | ||||
| Useful packages here are `lubridate`, `stringr`, and `forcats`. | Useful packages here are `lubridate`, `stringr`, and `forcats`. | ||||
| The results are saved in a **tidy.Rdata** file. | |||||
| The results are saved in a **Data/tidy.rds** file. | |||||
| After this second step, you will have your full data ready to use in R and shouldn't have to run the first two steps anymore (unless you get hold of new data). | After this second step, you will have your full data ready to use in R and shouldn't have to run the first two steps anymore (unless you get hold of new data). | ||||
| @@ -65,7 +65,7 @@ This script is for data transforming. It will contain all transformations of the | |||||
| Some "destructive" data management can occur here, such as dropping variables or observations, or modifying the levels of some factors. | Some "destructive" data management can occur here, such as dropping variables or observations, or modifying the levels of some factors. | ||||
| Useful packages here are `forcats`, `lubridate`, and `stringr`. | Useful packages here are `forcats`, `lubridate`, and `stringr`. | ||||
| The results are saved in a **transformed.Rdata** file. | |||||
| The results are saved in a **Data/transformed.rds** file. | |||||
| ### 04_Analyze.R | ### 04_Analyze.R | ||||
| @@ -73,7 +73,7 @@ This script will contain more data transforming, and the analyses with productio | |||||
| There is a bit of an overlap between **03_Transform.R** and **04_Analyze.R** as it is often an iterative process. Both files can be merged into one, but it can be useful to have some time-consuming transformations in a separate script and have the results handy. | There is a bit of an overlap between **03_Transform.R** and **04_Analyze.R** as it is often an iterative process. Both files can be merged into one, but it can be useful to have some time-consuming transformations in a separate script and have the results handy. | ||||
| Useful packages here are `broom`, `ggplot2`, and `modelr`. | Useful packages here are `broom`, `ggplot2`, and `modelr`. | ||||
| In this script *all* the "interesting results," full tables and ggplot graphs are included in a single hierarchical list, saved in a **results.Rdata** file. | |||||
| In this script *all* the "interesting results," full tables and ggplot graphs are included in a single hierarchical list, saved in a **Data/results.rds** file. | |||||
| All the results from the analyses should be saved as-is without transformation, so that every result can be used in the Rmd. | All the results from the analyses should be saved as-is without transformation, so that every result can be used in the Rmd. | ||||
| Having all the results pre-computed for the Rmd means that it will take mere seconds to re-compile, while still having access to all the results if you want/need to use them somewhere in the manuscript/report. | Having all the results pre-computed for the Rmd means that it will take mere seconds to re-compile, while still having access to all the results if you want/need to use them somewhere in the manuscript/report. | ||||