title: NMPP: a user-customized NimbleGen microarray data processing pipeline.
abstract: NMPP package is a bundle of user-customized tools based on established algorithms and methods to process self-designed NimbleGen microarray data. It features a command-line-based integrative processing procedure that comprises five major functional components, namely the raw microarray data parsing and integrating module, the array spatial effect smoothing and visualization module, the probe-level multi-array normalization module, the gene expression intensity summarization module and the gene expression status inference module.
  
  
  BACKGROUND
  http://plantgenomics.biology.yale.edu/nmpp
authors.affiliation: Center of Bioinformatics & Peking-Yale Joint Research Center of Plant Molecular Genetics and Agrobiotechnology, College of Life Sciences, Peking University, Beijing 100871, China. Xiangfeng.Wang@Yale.edu
authors.forename: Xiangfeng
authors.initials: X
authors.lastname: Wang
authors.forename: Hang
authors.initials: H
authors.lastname: He
authors.forename: Lei
authors.initials: L
authors.lastname: Li
authors.forename: Runsheng
authors.initials: R
authors.lastname: Chen
authors.forename: Xing Wang
authors.initials: XW
authors.lastname: Deng
authors.forename: Songgang
authors.initials: S
authors.lastname: Li
mesh_terms: D000465:Algorithms; D020869:Gene Expression Profiling / Q000379:methods*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012984:Software; D014584:User-Computer Interface