gphmm (0.99.0)

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Generalized Pair Hidden Markov Chain Model for Sequence Alignment.

http://cran.r-project.org/web/packages/gphmm

Implementation of a generalized pair hidden Markov chain model (GPHMM) that can be used to compute the probability of alignment between two sequences of nucleotides (e.g., a reference sequence and a noisy sequenced read). The model can be trained on a dataset where the noisy sequenced reads are known to have been sequenced from known reference sequences. If no training sets are available default parameters can be used.

Maintainer: Fanny Perraudeau
Author(s): Fanny Perraudeau [aut, cre], James Bullard [aut]

License: Artistic-2.0

Uses: docopt, dplyr, Rcpp, stringi, stringr, testthat, knitr, jsonlite

Released over 2 years ago.


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