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maffilter website  

MafFilter is a program dedicated to the analysis of genome alignments. It parses and manipulates MAF files as well as more simple fasta files. Despite various filtering options and format conversion tools, MafFilter can compute a wide range of statistics (phylogenetic trees, nucleotide diversity, inferrence of selection, etc.)

Environment Modules

Run module spider maffilter to find out what environment modules are available for this application.

System Variables

  • HPC_MAFFILTER_DIR - installation directory
  • HPC_MAFFILTER_BIN - executable directory


If you publish research that uses maffilter you have to cite it as follows:

[Dutheil JY, Gaillard S, Stukenbrock EH. BMC Genomics. 2014 Jan 22;15:53. MafFilter: a highly flexible and extensible multiple genome alignment files processor.]