hmm_view1
Produces a graphical description of the state-transition
Usage
hmm_view {[OPTIONS]
<hmm_fname>
<cat_map_fname> | <cat_map_str>}
Overview
produces a graphical description of the state-transition structure of a phylo-HMM, which can be converted to a viewable image using the 'dot' program. (http://www.graphviz.org)
Options
-
-k <nrcats> -
Assume a separate version of each state for each of <nrcats> rate categories.
-
-i <icats> -
Assume use of indel model for specified category names.
-
-t <tree> -
(Required with
-i) Tree topology to assume for indel model (.nh file).
-
-C <cats> -
Show only the states corresponding to the specified category names.
-
-R <piv> -
Reflect the HMM about the specified 'pivot' categories. (Not yet implemented.)
-
-x -
Don't show unconnected states.
Releases
Unchanged in 4 releases since Debian 10 (Buster).