align_part_set: Co-optimal alignments from tree partitions

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

Description

Produce co-optimal MSAs from the N-3 bipartitions of the starting tree. This function performs one iteration i 1: Take i partition and align both sides Heads (H) and Tails (T) and we get H1,H2 and T1, T2 2: align combinations again Heads and Tails: H1H2, H1T1, H1T2, T1T2 => 8 combinations

Usage

align_part_set(x, partition_set, msa.exec, method, msa.program,
  coopt.sub = "all")

Arguments

x	XXX
partition_set	XXX
msa.exec	XXX
method	XXX
msa.program	XXX
coopt.sub	XXX

heibl/polenta documentation built on May 17, 2019, 3:22 p.m.