N741pkg

Package Last Updated: 03-13-2017

N741 Package of R code and templates for course

Install from Github

devtools::install_github("melindahiggins2000/N741pkg")

NOTE 1: You need to install the devtools package first to use the devtools""install_github() function.

NOTE 2: This package also needs the dplyr package, be sure to also have dplyr installed, which is part of tidyverse.

Install from Github - build the vignettes and force updates

devtools::install_github("melindahiggins2000/N741pkg", build_vignettes=TRUE, force=TRUE)

View Vignette Demo

Description

This package was created for N741 Big Data Analytics for Healthcare. It contains functions and R Markdown templates helpful in this course.

To date, this N741pkg includes 2 functions and 1 R Markdown template described below.

Functions Included

To date, this package includes 2 functions:

• tbl.continuous(x,x$a,"label for var a")

  • This function creates a table of summary statistics for a numeric variable in a data frame.
  • There are 3 arguments you need to provide:
    • a data.frame, df
    • a column variable from the data.frame df$var
    • a character vector to serve as a label for the variable "var label"
  • The returned table is a data.frame object with 1 row and 10 variables/columns. These 10 columns include:
    • item: the variable label provided
    • n: the number of non-missing values
    • missing: the number of missing values
    • min: the minimum value
    • avg: the average/mean value
    • SD: the standard deviation of the values
    • median: the median value
    • Q1: the 25th percentile (1st quartile) of the values
    • Q3: the 75th percentile (3rd quartile) of the values
    • max: the maximum value

• tbl.cat(gx,gx$b)

  • This function creates a table of summary statistics (frequencies and percents) for a categorical (or ordinal) variable in a data frame.
  • There are 2 arguments you need to provide:
    • a "grouped" data.frame, gdf SEE NOTE
    • a column variable from the "grouped" data.frame gdf$var
  • NOTE A "grouped" data.frame can be created using the dplyr::group_by() function. See the example provided with help(tbl.cat). You need to "group_by" the categorical (or ordinal) variable you want to make the table for.
  • The returned table is a data.frame object with 1 row and 3 variables/columns. These 3 columns include:
    • var: the categorical variable categories or ordinal levels
    • freq: the frequencies (or counts) for each category or level
    • pct: the percentage of the total number of rows - these percents are NOT adjusted for missing. However, the frequency and percentage of NAs are provided.

Template Included

To date, this package includes 1 R Markdown Template "N741 Final Project". After installing the N741pkg (from Github using devtools::install_github() listed above), you will be able to access the R Markdown template(s) included. To access these custom templates, use the File Menu to create a new R Markdown file:

When creating a new R Markdown file, in addition to "Document", "Presentation", and "shiny", you can also create a new R Markdown documents "From Template". Any packages you have installed which have templates included will show up here. After installing N741pkg you should see the "N741 Final Project" listed - just select the template and click "OK".