mafft: Compute multiple sequence alignment

In tanaylab/reputils: Utility functions for working with transposable elements

Description

Computes multiple sequence alignment using mafft.

Usage

mafft(sequences, ids = NULL, subgroup = FALSE, family = "te",
  save = FALSE, outdir = NULL, threads = -1, epsilon = 0.123,
  memsave = FALSE, fft = TRUE, genafpair = FALSE,
  overwrite = FALSE, op = 1.53, parttree = FALSE, retree = 2,
  maxiterate = 0, long = FALSE, local = FALSE)

Arguments

msa	DNAStringSet.

Value

Returns a long data.frame

tanaylab/reputils documentation built on Nov. 5, 2019, 9:58 a.m.