lharris421/gdexpl: Explore Genes Linked to Diseases and Diseases Linked to Genes

gdexpl is formed around a Shiny Gadget that easily allows for the output of files for either chromosome mapping or a data table. There are currently hundreds of diseases that can be explored using a chromoMap. The chromoMap is modified from the package 'chromoMap' by Lakshay Anand. I do not claim the chromoMap to be my own creation, I merely use it as a tool to display data brought together by gdexpl. The versions of chromoMap in gdexpl only have modifications to about 5% of the code to facilitate use in and interaction within a Shiny Gadget. The user is also able to manually enter a gene id or select on that appears in a chromoMap produced. gdexpl also allows the user save the data from the chromoMap or Data Table produced to a file or to their R enviornment. The Shiny Gadget takes user input and scrapes for data or calls and API in order to bring together information to be presented in a table or chromomap. The diseases are looked up using their ICD-9 codes (from the desgenet2r API) and the resulting genes have data scraped from the NIH website. The creation of the Data Table uses the desgenet2r API as well. Accompanying gdexpl are two data sets, one is information about human chromosomes (create for this project). The other is the disease list and their respective ICD-9 numbers which is a data set scrapped specifically for this project. Functions have been provided that can be used to reproduce these datasets. There is also an accompanying function (chromomap_2) that can be used to recreate the ChromoMap from files produced when using the Gadget.

install.packages("remotes")
remotes::install_github("lharris421/gdexpl")