aphid: an R package for analysis with profile hidden Markov models

被引：12
|
作者：
Wilkinson, Shaun P. [1 ]
机构：
[1] Victoria Univ Wellington, Sch Biol Sci, Wellington, New Zealand
来源：
BIOINFORMATICS | 2019年 / 35卷 / 19期
关键词：
D O I：
10.1093/bioinformatics/btz159
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
aSummary: Hidden Markov models (HMMs) and profile HMMs form an integral part of biological sequence analysis, supporting an ever-growing list of applications. The aphid R package can be used to derive, train, plot, import and export HMMs and profile HMMs in the R environment. Computationally-intensive dynamic programing recursions, such as the Viterbi, forward and backward algorithms are implemented in C++ and parallelized for increased speed and efficiency.
引用
收藏
页码：3829 / 3830
页数：2
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