aphid 1.3.3

Analysis with Profile Hidden Markov Models

Released May 8, 2019 by Shaun Wilkinson

This package can be loaded by Renjin but 9 out 16 tests failed.


openssl 1.3 kmer 1.1.1 Rcpp

Designed for the development and application of hidden Markov models and profile HMMs for biological sequence analysis. Contains functions for multiple and pairwise sequence alignment, model construction and parameter optimization, file import/export, implementation of the forward, backward and Viterbi algorithms for conditional sequence probabilities, tree-based sequence weighting, and sequence simulation. Features a wide variety of potential applications including database searching, gene-finding and annotation, phylogenetic analysis and sequence classification. Based on the models and algorithms described in Durbin et al (1998, ISBN: 9780521629713).



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    <name>bedatadriven public repo</name>

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Test Results

This package was last tested against Renjin 0.9.2726 on May 10, 2019.