Jessica Severin <severin@gsc.riken.jp>
* Software License Agreement (BSD License) * EdgeExpressDB [eeDB] system * copyright (c) 2007-2009 Jessica Severin RIKEN OSC * All rights reserved. * Redistribution and use in source and binary forms, with or without * modification, are permitted provided that the following conditions are met: * * Redistributions of source code must retain the above copyright * notice, this list of conditions and the following disclaimer. * * Redistributions in binary form must reproduce the above copyright * notice, this list of conditions and the following disclaimer in the * documentation and/or other materials provided with the distribution. * * Neither the name of Jessica Severin RIKEN OSC nor the * names of its contributors may be used to endorse or promote products * derived from this software without specific prior written permission. * * THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS ''AS IS'' AND ANY * EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED * WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE * DISCLAIMED. IN NO EVENT SHALL COPYRIGHT HOLDERS BE LIABLE FOR ANY * DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES * (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; * LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND * ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT * (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS * SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Description: stream all expression (with feature) out of database with a given set of source, experiment and datatype filters Arg (1) : $database (MQdb::Database) Arg (2...) : hash named filter parameters. datatypes=>["tpm","raw"], sources=>[$fsrc1, $fsrc2,$fsrc3], instances of EEDB::FeatureSource experiments=>[$exp1, $exp2] instances of EEDB::Experiment Returntype : a DBStream instance Exceptions : none
Description: stream all expression (with feature) on a specific EEDB::Chrom with a given set of source, experiment and datatype filters Arg (1) : $chrom (EEDB::Chrom object with database) Arg (2...) : hash named filter parameters. datatypes=>["tpm","raw"], sources=>[$fsrc1, $fsrc2,$fsrc3], instances of EEDB::FeatureSource experiments=>[$exp1, $exp2] instances of EEDB::Experiment Returntype : a DBStream instance Exceptions : none
Description: stream all expression (with feature) from a specific region on a genome with a given set of source, experiment and datatype filters Arg (1) : $database (MQdb::Database) Arg (2) : $assembly_name (string) Arg (3) : $chrom_name (string) Arg (4) : $chrom_start (integer) Arg (5) : $chrom_end (integer) Arg (6...) : hash named filter parameters. datatypes=>["tpm","raw"], sources=>[$fsrc1, $fsrc2,$fsrc3], instances of EEDB::FeatureSource experiments=>[$exp1, $exp2] instances of EEDB::Experiment Returntype : a DBStream instance Exceptions : none
To install EEDB, copy and paste the appropriate command in to your terminal.
cpanm
cpanm EEDB
CPAN shell
perl -MCPAN -e shell install EEDB
For more information on module installation, please visit the detailed CPAN module installation guide.