NMPP: a user-customized NimbleGen microarray data processing pipeline
Open Access
- 12 October 2006
- journal article
- research article
- Published by Oxford University Press (OUP) in Bioinformatics
- Vol. 22 (23) , 2955-2957
- https://doi.org/10.1093/bioinformatics/btl525
Abstract
Summary: 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: Contact:Xiangfeng.Wang@Yale.edu Supplementary information: The supplementary materials, figures, testing dataset, software instructions and a typical workflow of using NMPP package are accessible through the above homepage.Keywords
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