perl-Bio-Das-1.17-alt1.noarch.rpm


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Description

perl-Bio-Das - Client-side library for Distributed Genome Annotation System

Property Value
Distribution ALT Linux Sisyphus
Repository Autoimports noarch
Package name perl-Bio-Das
Package version 1.17
Package release alt1
Package architecture noarch
Package type rpm
Installed size 240.97 KB
Download size 240.97 KB
Official Mirror ftp.altlinux.org
Bio::Das provides access to genome sequencing and annotation databases.that export their data in Distributed Annotation System (DAS) format
version 1.5.  This system is described at http://biodas.org.  Both
unencrypted (http:) and SSL-encrypted (https:) DAS servers are
supported.  (To run SSL, you will need IO::Socket::SSL and Net::SSLeay
installed).
The components of the Bio::Das class hierarchy are:
=over 4
=item Bio::Das
This class performs I/O with the DAS server, and is responsible for
generating DAS requests.  At any time, multiple requests to different
DAS servers can be running simultaneously.
=item Bio::Das::Request
This class encapsulates a request to a particular DAS server.  After
execution of the request, the response can be recovered from the
object as well.  Methods allow you to return the status of the
request, the error message if any, and the data results.
=item Bio::Das::Segment
This encapsulates information about a segment on the genome, and
contains information on its start, end and length.
=item Bio::Das::Feature
This provides information on a particular feature of a
Bio::Das::Segment, such as its type, orientation and score.
=item Bio::Das::Type
This class contains information about a feature's type, and is a
holder for an ontology term.
=item Bio::Das::DSN
This class contains information about a DAS data source.
=item Bio::Das::Stylesheet
This class contains information about the stylesheet for a DAS source.
=back

Alternatives

Package Version Architecture Repository
perl-Bio-Das - - -

Requires

Name Value
/usr/share/perl5 -
perl(Bio/DB/GFF/Aggregator.pm) -
perl(Bio/Das/SegmentI.pm) -
perl(Bio/DasI.pm) -
perl(Bio/Location/Simple.pm) -
perl(Bio/Location/Split.pm) -
perl(Bio/Location/WidestCoordPolicy.pm) -
perl(Bio/LocationI.pm) -
perl(Bio/Root/Root.pm) -
perl(Bio/Root/RootI.pm) -
perl(Bio/SeqFeatureI.pm) -
perl(CGI.pm) -
perl(Compress/Zlib.pm) >= 1.0
perl(DBI.pm) -
perl(Data/Dumper.pm) -
perl(File/Basename.pm) -
perl(File/Path.pm) -
perl(File/Spec.pm) -
perl(Getopt/Long.pm) -
perl(HTML/Parser.pm) >= 3.0
perl(HTTP/Daemon.pm) -
perl(HTTP/Response.pm) -
perl(HTTP/Status.pm) -
perl(IO/Select.pm) -
perl(IO/Socket.pm) -
perl(MIME/Base64.pm) >= 2.120
perl(Memoize.pm) -
perl(Sys/Hostname.pm) -
perl(constant.pm) -
perl(overload.pm) -
rpmlib(PayloadIsLzma) -

Provides

Name Value
perl(Bio/Das.pm) = 1.170
perl(Bio/Das/AGPServer/Config.pm) = 1.0
perl(Bio/Das/AGPServer/Daemon.pm) -
perl(Bio/Das/AGPServer/Parser.pm) -
perl(Bio/Das/AGPServer/Proxy.pm) -
perl(Bio/Das/AGPServer/SQLStorage.pm) -
perl(Bio/Das/AGPServer/SQLStorage/CSV/DB.pm) -
perl(Bio/Das/AGPServer/SQLStorage/MySQL/DB.pm) -
perl(Bio/Das/DSN.pm) -
perl(Bio/Das/Feature.pm) = 0.910
perl(Bio/Das/FeatureIterator.pm) = 0.010
perl(Bio/Das/HTTP/Fetch.pm) = 1.110
perl(Bio/Das/Map.pm) = 1.010
perl(Bio/Das/Request.pm) -
perl(Bio/Das/Request/Dnas.pm) -
perl(Bio/Das/Request/Dsn.pm) -
perl(Bio/Das/Request/Entry_points.pm) -
perl(Bio/Das/Request/Feature2Segments.pm) -
perl(Bio/Das/Request/Features.pm) -
perl(Bio/Das/Request/Sequences.pm) -
perl(Bio/Das/Request/Stylesheet.pm) -
perl(Bio/Das/Request/Types.pm) -
perl(Bio/Das/Segment.pm) = 0.910
perl(Bio/Das/Stylesheet.pm) = 1.0
perl(Bio/Das/Type.pm) -
perl(Bio/Das/TypeHandler.pm) -
perl(Bio/Das/Util.pm) = 0.010
perl-Bio-Das = 1.17-alt1

Download

Type URL
Binary Package perl-Bio-Das-1.17-alt1.noarch.rpm
Source Package perl-Bio-Das-1.17-alt1.src.rpm

Install Howto

  1. Add the following line to /etc/apt/sources.list:
    
    rpm [Sisyphus] http://ftp.altlinux.org/pub/distributions/ALTLinux/autoimports/Sisyphus noarch autoimports
    rpm [Sisyphus] http://ftp.altlinux.org/pub/distributions/ALTLinux/autoimports/Sisyphus noarch autoimports
    
  2. Update the package index:
    # sudo apt-get update
  3. Install perl-Bio-Das rpm package:
    # sudo apt-get install perl-Bio-Das

Files

Path
/usr/share/doc/perl-Bio-Das-1.17/ChangeLog
/usr/share/doc/perl-Bio-Das-1.17/DISCLAIMER.txt
/usr/share/perl5/Bio/Das.pm
/usr/share/perl5/Bio/Das/DSN.pm
/usr/share/perl5/Bio/Das/Feature.pm
/usr/share/perl5/Bio/Das/FeatureIterator.pm
/usr/share/perl5/Bio/Das/Map.pm
/usr/share/perl5/Bio/Das/Request.pm
/usr/share/perl5/Bio/Das/Segment.pm
/usr/share/perl5/Bio/Das/Stylesheet.pm
/usr/share/perl5/Bio/Das/Type.pm
/usr/share/perl5/Bio/Das/TypeHandler.pm
/usr/share/perl5/Bio/Das/Util.pm
/usr/share/perl5/Bio/Das/AGPServer/Config.pm
/usr/share/perl5/Bio/Das/AGPServer/Daemon.pm
/usr/share/perl5/Bio/Das/AGPServer/Parser.pm
/usr/share/perl5/Bio/Das/AGPServer/Proxy.pm
/usr/share/perl5/Bio/Das/AGPServer/SQLStorage.pm
/usr/share/perl5/Bio/Das/AGPServer/SQLStorage/
/usr/share/perl5/Bio/Das/AGPServer/SQLStorage/CSV/DB.pm
/usr/share/perl5/Bio/Das/AGPServer/SQLStorage/MySQL/DB.pm
/usr/share/perl5/Bio/Das/HTTP/Fetch.pm
/usr/share/perl5/Bio/Das/Request/Dnas.pm
/usr/share/perl5/Bio/Das/Request/Dsn.pm
/usr/share/perl5/Bio/Das/Request/Entry_points.pm
/usr/share/perl5/Bio/Das/Request/Feature2Segments.pm
/usr/share/perl5/Bio/Das/Request/Features.pm
/usr/share/perl5/Bio/Das/Request/Sequences.pm
/usr/share/perl5/Bio/Das/Request/Stylesheet.pm
/usr/share/perl5/Bio/Das/Request/Types.pm

See Also

Package Description
perl-Bio-Das-Lite-2.11-alt1.noarch.rpm Bio::Das::Lite is an implementation of the BioDas protocol, http://biodas.org/
perl-Bio-EBI-RNAseqAPI-1.04-alt1.noarch.rpm A Perl interface to the EMBL-EBI RNA-seq analysis API
perl-Bio-ECell-0.10-alt1.noarch.rpm Perl interface for E-Cell Simulation Environment
perl-Bio-EUtilities-1.73-alt1.noarch.rpm Webagent which interacts with and retrieves data from NCBI's eUtils
perl-Bio-EasyYang-1-alt1.noarch.rpm A tiny interface for Bio::Tools::Run::Phylo::PAML::Yn00 module
perl-Bio-FASTASequence-0.07-alt1.noarch.rpm Perl extension for Bioinformatics. Parsing sequence informations
perl-Bio-FASTASequence-File-0.04-alt1.noarch.rpm perl module Bio-FASTASequence-File
perl-Bio-FdrFet-0.05-alt1.noarch.rpm Perl extension for False Discovery Rate and Fisher Exact Test applied to pathway analysis
perl-Bio-FdrFet-scripts-0.05-alt1.noarch.rpm Bio-FdrFet scripts
perl-Bio-GFF3-2.0-alt1.noarch.rpm fast, low-level GFF3 manipulation
perl-Bio-GFF3-scripts-2.0-alt1.noarch.rpm Bio-GFF3 scripts
perl-Bio-GMOD-Blast-Graph-0.06-alt1.noarch.rpm display a graphical summary of a BLAST report
perl-Bio-GenBankParser-0.05-alt1.noarch.rpm Parse::RecDescent parser for a GenBank record
perl-Bio-Glite-0.10-alt1.noarch.rpm G-language Genome Analysis Environment REST service interface module
perl-Bio-Graphics-2.25-alt1_6.noarch.rpm Generate GD images of Bio::Seq objects
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