medman1025 / n741pkg

N741 Package of R code and templates for course

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.

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".