MSIP

Dependancy

MSdev

MSIP is designed based on MSdev, a platform for metabolomics data analysis and methodology development.

MSdev design

MSdev integrate, extend and develop lots of MS data analysis, chemical calculation tools and database, which is nessesary for MSIP and other advance metabolic method.

MSdev architecture

Install MSdev from github:

(Not public available until our article publised)

  devtools::install_github("DrRuiLi/MSCC")
  devtools::install_github("DrRuiLi/MSdb")
  devtools::install_github("DrRuiLi/MSdev")

CFM docker

see CFM

  docker pull wishartlab/cfmid

RXNMapper

see RXNMapper

  conda create -n rxnmapper python=3.6 -y
  conda activate rxnmapper
  pip install rxnmapper

Install

Install MSIP from github:

(Not public available until our article publised)

  devtools::install_github("DrRuiLi/MSIP")

Usage

Running MSIP shinyAPP:

  library(MSIP)
  data(msdev.13C1)
  MSIP_shiny_start(msdev.13C1)