flowfp a bioconductor package for fingerprinting flow cytometric dataflowfp bioconductor包指纹仪数据流.pdfVIP

Hindawi Publishing Corporation Advances in Bioinformatics Volume 2009, Article ID 193947, 11 pages doi:10.1155/2009/193947 Research Article FlowFP: A Bioconductor Package for Fingerprinting Flow Cytometric Data Wade T. Rogers and Herbert A. Holyst Department of Pathology and Laboratory Medicine, School of Medicine, University of Pennsylvania, 207 John Morgan Bldg., Philadelphia, PA 19104-6082, USA Correspondence should be addressed to Wade T. Rogers, rogersw@ Received 1 April 2009; Accepted 18 June 2009 Recommended by Raphael Gottardo A new software package called flowFP for the analysis of flow cytometry data is introduced. The package, which is tightly integrated with other Bioconductor software for analysis of flow cytometry, provides tools to transform raw flow cytometry data into a form suitable for direct input into conventional statistical analysis and empirical modeling software tools. The approach of flowFP is to generate a description of the multivariate probability distribution function of flow cytometry data in the form of a “fingerprint.” As such, it is independent of a presumptive functional form for the distribution, in contrast with model-based methods such as Gaussian Mixture Modeling. FlowFP is computationally efficient and able to handle extremely large flow cytometry data sets of arbitrary dimensionality. Algorithms and software implementation of the package are described. Use of the software is exemplified with applications to data quality control and to the automated classification of Acute Myeloid Leukemia. Copyright © 2009 W. T. Rogers and H. A. Holyst. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original