Medical mining

This tool allows you to create and control topic models. It works best with LDA and lets you visualize the results using LDAvis.

First setup:

• Checkout the project
• install all packages required
• start the shiny application by run app

Import your data

To import your own data, all it needs is to be a list of documents.

Minimal example:

data <- list("this is my example text","here i talk about the weather")

Edit this in the file tmscriptFacade.R

Installation

• on linux (ubuntu 14.04) apt-get install libxml2-dev libmpfr4 libmpfr-dev

• install gnu mp

• install gnu scientific library gsl

• devtools::install_github("kshirley/LDAtools")

• devtools::install_github("cpsievert/LDAvis")

• devtools::install_github("benmarwick/LDAviz")

• install.packages("shiny")

• install.packages("shinydashboard")

• install.packages("topicmodels")

• install.packages("servr")

• install.packages("tm")

• install.packages("Rmpfr")

• install.packages("SnowballC")

• install.packages("RJSONIO")

• install.packages("RCurl")

• install.packages("XML")

• install.packages("stringr")

• install.packages("rmongodb") # (only if you want to use MongoDB)

Note: on a mac you have to install gsl (brew install gsl)

You can also try to use the started streamgraph visualization to visualize topics along time, but this is under development.

• devtools::install_github("hrbrmstr/streamgraph")