biology/wise 2.4.1_1 DragonFly

Intelligent algorithms for DNA searches

System: DragonFly
Repository: DPorts
Maintainer: [email protected] (as in FreeBSD)
License: BSD3CLAUSE, GPLv2
Categories: biology
Package size: 1101.2 KiB, 10722.1 KiB installed

Description

"Wise2 is package that is focused on comparing DNA sequences at the level of its conceptual translation, regardless of sequencing error and introns. This really is a rewrite of the old wisetools package, which I wrote about 3 years ago.

It can compare a single protein or a profile HMM to a genomic DNA sequence, and predict a gene structure. This is algorithm, called genewise, is one of the algorithms available in Wise2. There are other algorithms focused on EST data rather than genomic data, as well as some other algorithm curios."

from the web site (Ewan Birney)

In the other systems

System

Port

Version

DragonFly

biology/wise

2.4.1_1

FreeBSD

biology/wise

2.4.1_1

HardenedBSD

biology/wise

2.4.1_1

GhostBSD

biology/wise

2.4.1_1

Install

Binary package:

pkg install wise

From DPorts:

cd /usr/dports/biology/wise && make install clean

Dependencies

Run dependencies 2

No port depends on this one.

Configuration

No options to configure.

Service scripts: none

Message after installing

Welcome to Wise2.2

You must set your WISECONFIGDIR to the config directory before
using the programs:

in (t)csh:  setenv WISECONFIGDIR /usr/local/share/wise/
in (ba)sh:  export WISECONFIGDIR=/usr/local/share/wise/

To try an example:

cd /usr/local/share/examples/wise
genewise road.pep human.genomic

===>   NOTICE:

The wise port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:

https://bugs.freebsd.org/bugzilla

More information about port maintainership is available at:

https://docs.freebsd.org/en/articles/contributing/#ports-contributing