The modified Screening and Ranking algorithm can detect chromosome copy number variants with high sensitivity and specificity. For a sequence of intensity values, the modified SaRa will process it by quantile normalization, search for change-point candidates, eliminate unlikely change-points, and then output the potential CNV segments by presenting the start point and end point by SNP or CNV marker.
- For Windows system,
1. select "packages" on the top of R Gui, choose "install package from local zip file," and select the "modSaRa_1.0.zip" file.
2. Type the R command: library(modSaRa).
- For Linux system,
1. enter the directory where .tar.gz package file is saved and type "R", type R command: install.packages("modSaRa_1.0.tar.gz",repos=NULL,type="source"),
2. Type the R command: library(modSaRa)