| 1 |
Source: wise
|
| 2 |
Section: science
|
| 3 |
Priority: optional
|
| 4 |
Maintainer: Debian-Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
|
| 5 |
XS-DM-Upload-Allowed: Yes
|
| 6 |
Uploaders: Philipp Benner <mail@philipp-benner.de>
|
| 7 |
Build-Depends: debhelper (>= 5), dpatch (>= 2.0.21), texlive-latex-base,
|
| 8 |
texlive-extra-utils, hevea, docbook-to-man, libglib1.2-dev
|
| 9 |
Standards-Version: 3.7.3
|
| 10 |
Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/wise/
|
| 11 |
Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/wise/
|
| 12 |
Homepage: http://www.ebi.ac.uk/~birney/wise2/
|
| 13 |
|
| 14 |
Package: wise
|
| 15 |
Architecture: any
|
| 16 |
Depends: ${shlibs:Depends}
|
| 17 |
Recommends: wise-doc (= ${source:Version})
|
| 18 |
Description: comparison of biopolymers, commonly DNA and protein sequences
|
| 19 |
Wise2 is a package focused on comparisons of biopolymers, commonly DNA
|
| 20 |
and protein sequences. There are many other packages which do
|
| 21 |
this, probably the best known being BLAST package (from NCBI) and the
|
| 22 |
Fasta package (from Bill Pearson). There are other packages, such as
|
| 23 |
the HMMER package (Sean Eddy) or SAM package (UC Santa Cruz) focused
|
| 24 |
on hidden Markov models (HMMs) of biopolymers.
|
| 25 |
.
|
| 26 |
Wise2's particular forte is the comparison of DNA sequence at the level
|
| 27 |
of its protein translation. This comparison allows the simultaneous
|
| 28 |
prediction of say gene structure with homology based alignment.
|
| 29 |
.
|
| 30 |
Wise2 also contains other algorithms, such as the venerable Smith-Waterman
|
| 31 |
algorithm, or more modern ones such as Stephen Altschul's generalised
|
| 32 |
gap penalties, or even experimental ones developed in house, such as
|
| 33 |
dba. The development of these algorithms is due to the ease of developing
|
| 34 |
such algorithms in the enviroment used by Wise2.
|
| 35 |
.
|
| 36 |
Wise2 has also been written with an eye for reuse and maintainability.
|
| 37 |
Although it is a pure C package you can access its functionality
|
| 38 |
directly in Perl. Parts of the package (or the entire package) can
|
| 39 |
be used by other C or C++ programs without namespace clashes as all
|
| 40 |
externally linked variables have the unique identifier Wise2 prepended.
|
| 41 |
|
| 42 |
Package: wise-doc
|
| 43 |
Architecture: all
|
| 44 |
Section: doc
|
| 45 |
Recommends: wise (= ${source:Version}), xpdf-reader | pdf-viewer
|
| 46 |
Description: documentation for the wise package
|
| 47 |
Wise2 is a package focused on comparisons of biopolymers, commonly DNA
|
| 48 |
and protein sequences. There are many other packages which do
|
| 49 |
this, probably the best known being BLAST package (from NCBI) and the
|
| 50 |
Fasta package (from Bill Pearson). There are other packages, such as
|
| 51 |
the HMMER package (Sean Eddy) or SAM package (UC Santa Cruz) focused
|
| 52 |
on hidden Markov models (HMMs) of biopolymers.
|
| 53 |
.
|
| 54 |
Wise2's particular forte is the comparison of DNA sequence at the level
|
| 55 |
of its protein translation. This comparison allows the simultaneous
|
| 56 |
prediction of say gene structure with homology based alignment.
|
| 57 |
.
|
| 58 |
Wise2 also contains other algorithms, such as the venerable Smith-Waterman
|
| 59 |
algorithm, or more modern ones such as Stephen Altschul's generalised
|
| 60 |
gap penalties, or even experimental ones developed in house, such as
|
| 61 |
dba. The development of these algorithms is due to the ease of developing
|
| 62 |
such algorithms in the enviroment used by Wise2.
|
| 63 |
.
|
| 64 |
Wise2 has also been written with an eye for reuse and maintainability.
|
| 65 |
Although it is a pure C package you can access its functionality
|
| 66 |
directly in Perl. Parts of the package (or the entire package) can
|
| 67 |
be used by other C or C++ programs without namespace clashes as all
|
| 68 |
externally linked variables have the unique identifier Wise2 prepended.
|
Parent Directory
| 
Revision Log