NMPP: a user-customized NimbleGen microarray data processing pipeline |
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| Authors: | Wang Xiangfeng He Hang Li Lei Chen Runsheng Deng Xing Wang Li Songgang |
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| Institution: | 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 |
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| 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. AVAILABILITY: http://plantgenomics.biology.yale.edu/nmpp |
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