Perl levels

ensembl-pipeline

ensembl-pipeline::java

ensembl-pipeline::java::pipeview

ensembl-pipeline::java::pipeview::jars

ensembl-pipeline::java::pipeview::src

ensembl-pipeline::java::pipeview::src::pathsteps

ensembl-pipeline::java::pipeview::src::pathsteps::common

ensembl-pipeline::java::pipeview::src::pathsteps::control

ensembl-pipeline::java::pipeview::src::pathsteps::gui

ensembl-pipeline::java::pipeview::src::pathsteps::gui::graph

ensembl-pipeline::java::pipeview::src::pathsteps::model

ensembl-pipeline::java::pipeview::src::pathsteps::test

ensembl-pipeline::modules

ensembl-pipeline::modules::Bio

ensembl-pipeline::modules::Bio::EnsEMBL

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Alignment

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::BatchSubmission

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Config

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Config::GeneBuild

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Config::Protein_Annotation

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Config::PseudoGenes

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Config::cDNAs_ESTs

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::DB

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::DBSQL

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::DBSQL::Finished

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::DBSQL::Protein

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Finished

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::GeneComparison

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::GeneDuplication

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::IDFactory

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Job

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Monitor

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Process

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Runnable

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Runnable::Protein

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::RunnableDB

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::RunnableDB::Protein

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::SeqFetcher

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::SubmissionSystem

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Task

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Task::RDB

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Task::RDB::Blast

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Task::Utils

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Tools

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Tools::BPlite

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Tools::Pmatch

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Transitions

ensembl-pipeline::modules::Bio::EnsEMBL::Pipeline::Utils

ensembl-pipeline::modules::t

ensembl-pipeline::modules::t::data

ensembl-pipeline::modules::t::data::ests

ensembl-pipeline::modules::t::dumps

ensembl-pipeline::modules::t::pipeline

ensembl-pipeline::modules::t::sptr

ensembl-pipeline::scripts

ensembl-pipeline::scripts::AlignWise

ensembl-pipeline::scripts::DataConversion

ensembl-pipeline::scripts::DataConversion::flybase

ensembl-pipeline::scripts::DataConversion::medaka

ensembl-pipeline::scripts::DataConversion::mitochondria

ensembl-pipeline::scripts::DataConversion::tetraodon

ensembl-pipeline::scripts::DataConversion::tetraodon::annotation

ensembl-pipeline::scripts::DataConversion::tetraodon::assembly

ensembl-pipeline::scripts::DataConversion::wormbase

ensembl-pipeline::scripts::EST

ensembl-pipeline::scripts::EST::dust

ensembl-pipeline::scripts::Features

ensembl-pipeline::scripts::Finished

ensembl-pipeline::scripts::Finished::assembly

ensembl-pipeline::scripts::Finished::assembly::AssemblyMapper

ensembl-pipeline::scripts::GeneBuild

ensembl-pipeline::scripts::GeneComparison

ensembl-pipeline::scripts::HMMs

ensembl-pipeline::scripts::LowCoverage

ensembl-pipeline::scripts::LowCoverage::generic_config

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio::EnsEMBL

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio::EnsEMBL::Analysis

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio::EnsEMBL::Analysis::Config

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio::EnsEMBL::Pipeline

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio::EnsEMBL::Pipeline::Config

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio::EnsEMBL::Pipeline::Config::GeneBuild

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio::EnsEMBL::Pipeline::Config::Protein_Annotation

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio::EnsEMBL::Pipeline::Config::PseudoGenes

ensembl-pipeline::scripts::LowCoverage::generic_config::Bio::EnsEMBL::Pipeline::Config::cDNAs_ESTs

ensembl-pipeline::scripts::LowCoverage::generic_config::pipe_conf

ensembl-pipeline::scripts::ModelTraining

ensembl-pipeline::scripts::Pre-release-site

ensembl-pipeline::scripts::Pseudogenes

ensembl-pipeline::scripts::Sequence

ensembl-pipeline::scripts::cDNA_update

ensembl-pipeline::scripts::chr_subseq

ensembl-pipeline::scripts::compara

ensembl-pipeline::scripts::mRNA

ensembl-pipeline::scripts::ncRNA

ensembl-pipeline::scripts::post_GeneBuild

ensembl-pipeline::scripts::protein_pipeline

ensembl-pipeline::scripts::sql

ensembl-pipeline::scripts::wga2genes

ensembl-pipeline::sql

ensembl-pipeline::test_system

ensembl-pipeline::test_system::config

ensembl-pipeline::test_system::config::Bio

ensembl-pipeline::test_system::config::Bio::EnsEMBL

ensembl-pipeline::test_system::config::Bio::EnsEMBL::Analysis

ensembl-pipeline::test_system::config::Bio::EnsEMBL::Analysis::Config

ensembl-pipeline::test_system::config::Bio::EnsEMBL::Analysis::Config::GeneBuild

ensembl-pipeline::test_system::config::Bio::EnsEMBL::Pipeline

ensembl-pipeline::test_system::config::Bio::EnsEMBL::Pipeline::Config

ensembl-pipeline::test_system::config::Bio::EnsEMBL::Pipeline::Config::GeneBuild

ensembl-pipeline::test_system::config::Bio::EnsEMBL::Pipeline::Config::Protein_Annotation

ensembl-pipeline::test_system::config::Bio::EnsEMBL::Pipeline::Config::PseudoGenes

ensembl-pipeline::test_system::config::Bio::EnsEMBL::Pipeline::Config::cDNAs_ESTs

ensembl-pipeline::test_system::docs

ensembl-pipeline::test_system::modules

ensembl-pipeline::test_system::reference_data

ensembl-pipeline::test_system::setup