pasta: Ultra-Large Multiple Sequence Alignment with PASTA

In heibl/rpg: Multiple Sequence Alignment with PASTA and GUIDANCE

Description

Provides a complete reimplementation of the PASTA algorithm (Mirarab, Nguyen, and Warnow 2014) in R.

Usage

pasta(seqs, gt, k = 200, cutoff = 0.93, parallel = FALSE,
  bootstrap = 100, msa.program = "mafft", method = "auto", exec, ncore)

Arguments

seqs	An object of class DNAbin or AAbin containing unaligned sequences of DNA or amino acids.
gt	Currently unused.
k	An integer giving the size of cluster in which the dataset is split.

heibl/rpg documentation built on May 17, 2019, 3:23 p.m.