MSA-Limit

Msa-limit is an analysis pipeline to test the efficiency of different multiple alignment software (MSA) on long reads. Using nanopore reads and a reference, it generates consensus sequences from the different MSA software to compare to the reference and see if the alignment is correct. (See the schematic in the doc file for more details) Usable MSA software: muscle,mafft,poa,kalign,spoa,kalign3,clustalo,abpoa,tcoffee