Description

Maximum-likelihood tree search with RAxML-NG, optionally combined with its integrated automatic model selection (MOOSE)

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

tree (file)

Optional starting tree in Newick format. If not given, RAxML-NG generates its own starting tree(s) (parsimony/random, auto-detected count based on MSA difficulty).

*.{nwk,newick,tree,treefile}

tree_constraint (file)

A backbone/topology constraint tree in Newick format

*.{nwk,newick,tree,treefile}

partitions (file)

A RAxML-NG partition/model-definition file, used in place of the model string input when given (e.g. for partitioned analyses, or --model auto=FILE for MOOSE on partitioned data).

*.{txt,part,partitions}

site_weights (file)

A file of positive-integer MSA column weights

*.{txt}

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

0 ()

0 ()

0 ()

Tools

raxmlng Documentation

RAxML-NG is a phylogenetic tree inference tool which uses maximum-likelihood (ML) optimality criterion.

https://github.com/amkozlov/raxml-ngdoi: 10.1093/bioinformatics/btz305License: GPL v2-or-later
Authors