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Thiago Luiz Araujo Miller > App-SimulateReads-0.15

App-SimulateReads-0.15

This Release App-SimulateReads-0.15  [Download] [Browse 14 Apr 2018
Latest Release App-SimulateReads-0.16  [Download] [Browse 15 Apr 2018
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Links Discussion Forum ] [ View/Report Bugs ] [ Dependencies ] [ Other Tools ]
Repository git://github.com/galantelab/simulate_reads.git - Website
CPAN Testers PASS (330)   FAIL (5)   [ View Reports ] [ Perl/Platform Version Matrix ]
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License The GNU General Public License, Version 3, June 2007
Special Files
Changes
INSTALL
LICENSE
Makefile.PL
MANIFEST
META.json

Modules

App::SimulateReads App builder that simulates single-end and paired-end reads.     0.15
App::SimulateReads::Base Policy and base module to App::SimulateReads project.     0.15
App::SimulateReads::CLI Base class for command line interface.     0.15
App::SimulateReads::CLI::App App::SimulateReads::CLI subclass for command line application interface.     0.15
App::SimulateReads::CLI::Command App::SimulateReads::CLI subclass for commands interface     0.15
App::SimulateReads::Command::Custom simulate command class. Simulate a custom sequencing     0.15
App::SimulateReads::Command::Expression expression command class. Manage expression-matrix database.     0.15
App::SimulateReads::Command::Expression::Add expression subcommand class. Add an expression-matrix to the database.     0.15
App::SimulateReads::Command::Expression::Remove expression subcommand class. Remove an expression-matrix from database.     0.15
App::SimulateReads::Command::Expression::Restore expression subcommand class. Restore database.     0.15
App::SimulateReads::Command::Genome simulate command class. Simulate genome sequencing     0.15
App::SimulateReads::Command::Quality quality command class. Manage quality profile database.     0.15
App::SimulateReads::Command::Quality::Add quality subcommand class. Add a quality profile to the database.     0.15
App::SimulateReads::Command::Quality::Remove quality subcommand class. Remove a quality profile from database.     0.15
App::SimulateReads::Command::Quality::Restore quality subcommand class. Restore database.     0.15
App::SimulateReads::Command::Transcriptome simulate command class. Simulate transcriptome sequencing     0.15
App::SimulateReads::DB Singleton class to manage database     0.15
App::SimulateReads::DB::Handle::Expression Class to handle expression-matrix database schemas.     0.15
App::SimulateReads::DB::Handle::Quality Class to handle quality database schemas.     0.15
App::SimulateReads::DB::Schema      
App::SimulateReads::DB::Schema::Result::ExpressionMatrix      
App::SimulateReads::DB::Schema::Result::Quality      
App::SimulateReads::DB::Schema::Result::SequencingSystem      
App::SimulateReads::Fastq Base class to simulate fastq entries     0.15
App::SimulateReads::Fastq::PairedEnd App::SimulateReads::Fastq subclass for simulate paired-end fastq entries.     0.15
App::SimulateReads::Fastq::SingleEnd App::SimulateReads::Fastq subclass for simulate single-end fastq entries.     0.15
App::SimulateReads::InterlaceProcesses Interlaces the processe id for differents processes, actually for parent, child processes.     0.15
App::SimulateReads::Quality Class to simulate quality entries     0.15
App::SimulateReads::Read Base class to simulate reads     0.15
App::SimulateReads::Read::PairedEnd App::SimulateReads::Read subclass for simulate paired-end reads.     0.15
App::SimulateReads::Read::SingleEnd App::SimulateReads::Read subclass for simulate single-end reads.     0.15
App::SimulateReads::Role::Digest Wrapper on Simulator class for genome/transcriptome sequencing     0.15
App::SimulateReads::Role::IO Input and output custom wrappers.     0.15
App::SimulateReads::Role::ParseArgv Getopt::Long wrapper.     0.15
App::SimulateReads::Role::RunTimeTemplate Extends class with runtime printf like function     0.15
App::SimulateReads::Simulator Class responsible to make the simulation     0.15
App::SimulateReads::Types Moose type constraints for App::SimulateReads project     0.15
App::SimulateReads::WeightedRaffle Weighted raffle interface.     0.15

Documentation

simulate_reads Creates single-end and paired-end fastq reads for transcriptome and genome simulation.  

Other Files

README.md
docker/README.md
docs/README.md