hmm_view
produces a graphical description of the state-transition
- Provided by: phast (Version: 1.6+dfsg-3)
- Report a bug
DESCRIPTION
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)
SYNOPSIS
hmm_view [OPTIONS] <hmm_fname> <cat_map_fname>|<cat_map_str>
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.