This is the command cassiopee that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
cassiopee - manual page for Cassiopee Version 1.0
SYNOPSIS
cassiopee [Options] <sequence>
DESCRIPTION
Usage:
-l: maximum index depth / maximum pattern size
-u: save index for later use
-s: sequence to index
-p: pattern to search
-f: file containing pattern to search
-o: output file
-r: apply tree reduction
-m: search mode: 0=DNA, 1=RNA, 2=Protein
-a: allow alphabet ambiguity search
-n: max consecutive N allowed matches in search
-e: max substitution allowed matches in search
-i: max indel allowed matches in search
-g: generates a dot file of the graph
-d: max depth of the graph
-t: output format: 0:tsv (default), 1:json
-x: minimum position in sequence
-y: maximum position in sequence
-v: show version
-h: show this message
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