CRAN

AlignStat 1.3.1

Comparison of Alternative Multiple Sequence Alignments

Released Sep 16, 2016 by Thomas Shafee, Ira Cooke

This package cannot yet be used with Renjin it depends on other packages which are not available: seqinr 3.4-5

Dependencies

seqinr 3.4-5 reshape2 1.4.2 ggplot2 2.2.1 Rcpp

Methods for comparing two alternative multiple sequence alignments (MSAs) to determine whether they align homologous residues in the same columns as one another. It then classifies similarities and differences into conserved gaps, conserved sequence, merges, splits or shifts of one MSA relative to the other. Summarising these categories for each MSA column yields information on which sequence regions are agreed upon my both MSAs, and which differ. Several plotting functions enable easily visualisation of the comparison data for analysis.

Source

R
C++

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