README.md

statTarget2

GitHub release GitHub release GitHub release GitHub release GitHub release

For details and latest version see https://stattarget.github.io/docs/

Package vignettes: Vignettes

Reference manual: Manual

Demo data: Data

Example reports: Reports

Binary Package: statTarget2_WindowsOnly.zip

*New features***

'ref.peaks' was implemented into QCRFSC for condisering the possibility of correlations of errors between features, as well as the batch effect. It is adaptable to small datasets with few quality control samples. See shiftCor function.

Citation

Please cite the following article when using statTarget or QC-RFSC algorithm:

Luan H., Ji F., Chen Y., Cai Z. (2018) statTarget: A streamlined tool for signal drift correction and interpretations of quantitative mass spectrometry-based omics data. Analytica Chimica Acta. dio: https://doi.org/10.1016/j.aca.2018.08.002

Luan H., Ji F., Chen Y., Cai Z. (2018) Quality control-based signal drift correction and interpretations of metabolomics/proteomics data using random forest regression. bioRxiv 253583; doi: https://doi.org/10.1101/253583

System requirements

Dependent on R (>= 3.3.0)

If you did not install the R software yet,you can download R >= 3.3.0 from https://www.r-project.org

Installation

Install “statTarget2” at the Bioconductor

if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("statTarget", version = "3.9") 
library(statTarget)
statTargetGUI()

Install the version of "statTarget2" at Github. copy this code into R

library(devtools)

devtools::install_github("statTarget/statTarget2")

library(statTarget)

statTargetGUI()

IMPORTANCE: for mac PC, XQuartz instead of X11 support should be installed for the Graphical User Interface (GUI). Download it from https://www.xquartz.org.

RGTK2 is a binding for R to the GTK2 library and dependent libraries, and a multi-platform package for creating graphical user interfaces. If you have any problems about RGTK2 installation, see the related installation information for R and GTK on Windows/Mac OS at https://gist.github.com/sebkopf/9405675.

We recommend the R 3.3.0 and RGtk2 2.20.31 for mac OS paltform. The R 3.3.0 and RGtk2 2.20.31 sailed through the test. If you have multiple versions of R framework installed, RSwitch - a small GUI that allows you to switch between R versions quickly. Download it from https://r.research.att.com



13479776/statTarget documentation built on May 5, 2019, 10:38 a.m.