amap(1) on Linux
The text 76ea79b04c7b, as Debian 7 (Wheezy), Debian 6.0 (Squeeze), Debian 5.0 (Lenny) shipped it.
Protein multiple alignment by sequence annealing
Flags it lists
-
--alignment-order -
--consistency -
--edge-weight-threshold -
--emissions -
--gap-factor -
--iterative-refinement -
--no-edge-reordering -
--paramfile -
--pre-training -
--print-posteriors -
--progressive -
--train -
--use-max-stepsize -
--verbose -
-a -
-annot -
-c -
-clustalw -
-e -
-g -
-ir -
-maxstep -
-noreorder -
-p -
-pairs -
-pre -
-print -
-prog -
-t -
-v -
-viterbi -
-w