| NBLDA-package {NBLDA} | R Documentation |
Classifying count data using Poisson/Negative Binomial linear discriminant analysis
Description
This package applies linear discriminant analysis using Poisson (PLDA) and Negative Binomial (NBLDA) distributions for the classification of count data, such as gene expression data from RNA-sequencing. PLDA algorithms have been proposed by Witten (2011) through an R package PoiClaClu, which is available at CRAN. Dong et al. (2016) proposed an extension of PLDA to negative Binomial distribution. However, the algorithm is not provided through an R package. Hence, we develop an R package NBLDA to make the proposed algorithm available through CRAN. Detailed information about mathematical backgrounds is available in the references given below.
Author(s)
Dincer Goksuluk, Gokmen Zararsiz, Selcuk Korkmaz, A. Ergun Karaagaoglu
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Maintainers:
Dincer Goksuluk (Correspondence), dincer.goksuluk@hacettepe.edu.tr
Gokmen Zararsiz, gokmenzararsiz@erciyes.edu.tr
Selcuk Korkmaz, selcukorkmaz@hotmail.com
References
Witten, DM (2011). Classification and clustering of sequencing data using a Poisson model. Ann. Appl. Stat. 5(4), 2493–2518. doi:10.1214/11-AOAS493.
Dong, K., Zhao, H., Tong, T., & Wan, X. (2016). NBLDA: negative binomial linear discriminant analysis for RNA-Seq data. BMC Bioinformatics, 17(1), 369. http://doi.org/10.1186/s12859-016-1208-1
See Also
https://CRAN.R-project.org/package=PoiClaClu
| Package: | NBLDA |
| Type: | Package |
| License: | GPL (>= 2) |