期刊
BIOINFORMATICS
卷 31, 期 14, 页码 2418-2420出版社
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btv146
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资金
- NSF Graduate Research Fellowship [103049]
- Carver Fellowship, Purdue University
- NSF CAREER award [DBI-1054826]
- Div Of Biological Infrastructure
- Direct For Biological Sciences [1501900] Funding Source: National Science Foundation
Cardinal is an R package for statistical analysis of mass spectrometry-based imaging (MSI) experiments of biological samples such as tissues. Cardinal supports both Matrix-Assisted Laser Desorption/Ionization (MALDI) and Desorption Electrospray Ionization-based MSI workflows, and experiments with multiple tissues and complex designs. The main analytical functionalities include (1) image segmentation, which partitions a tissue into regions of homogeneous chemical composition, selects the number of segments and the subset of informative ions, and characterizes the associated uncertainty and (2) image classification, which assigns locations on the tissue to pre-defined classes, selects the subset of informative ions, and estimates the resulting classification error by (cross-) validation. The statistical methods are based on mixture modeling and regularization.
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