Uses of Package
fr.ens.biologie.genomique.eoulsan.core
Packages that use fr.ens.biologie.genomique.eoulsan.core
Package
Description
This package define the annotations on Eoulsan classes plug-ins.
This package contains and define checkers of DataFormat.
This package contains Eoulsan workflow core class.
This package contains classes for schedulers.
This package contains classes for cluster schedulers.
This package contains Eoulsan workflow dedicated classes.
This package contains classes for data files, data types and data formats.
This package contain classes related to read tool xml file from galaxy.
This package contain classes related to parameter extractions from XML Galaxy tool xml files.
This package define the steps for the Eoulsan workflow.
This packages contains the ChIP-Seq modules.
This packages contains the peak-calling modules.
This packages contains all the quality check modules for ChIP-Seq.
This package contain all the classes related to the differential analysis step.
This package contain all the classes related to the expression step.
This package contain all the classes related to the expression step in hadoop mode.
This package contain all the classes related to the expression step in local mode.
This package contain all the classes related to FastQC.
This package contain generator steps.
This package contain all the classes related to the mapping (reads filtering, mapping and
alignments filtering) step.
This package contain all the classes related to the mapping (reads filtering, mapping and
alignments filtering) step in hadoop mode.
This package contain all the classes related to the mapping (reads filtering, mapping and
alignments filtering) step in local mode.
This package contain classes related data management in Hadoop mode.
This package contain classes related to upload data to HDFS and Cloud.
This package contains requirement classes for Eoulsan.
This package contains splitter and merger used when running Eoulsan on a standard cluster to get
more parallelization efficiency.
This package contains Eoulsan user interface classes.
This package contains utility classes for hadoopS.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.checkers
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.coreClassDescriptionAbstract class that define a port.This class define a basic implementation of a Ports class.This class contains methods to create workflow data file names.This interface define an input port of a step.This interface define a group of input ports.This class allow to easily create input ports for a step.This interface define an output port of a step.This interface define a group of output ports.This class allow to easily create input ports for a step.This enum define the parallelization modes of a step.This class define a parameter.This interface define a port of a step.This interface define a group of ports.This interface allow to set the progress of a task.This interface define a step of the workflow.This enum define the value of the discard output attribute of the step tag in the Eoulsan workflow file.This enum define the states of the steps.This enum define the type of step.This interface define the context of a step.This class define the result of a step.This interface define a step status.This interface define a Workflow.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.core.workflowClassDescriptionThis class contains methods to create workflow data file names.This interface define an input port of a step.This interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This enum define the parallelization modes of a step.This class define a parameter.This interface allow to set the progress of a task.This interface define a step of the workflow.This enum define the value of the discard output attribute of the step tag in the Eoulsan workflow file.This enum define the states of the steps.This enum define the type of step.This interface define the context of a step.This class define the result of a step.This interface define a step status.This interface define a Workflow.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.data
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.galaxytoolsClassDescriptionThis class define a parameter.This interface define the context of a step.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modulesClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This enum define the parallelization modes of a step.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.chipseqClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.chipseq.peakcallingClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.chipseq.qcClassDescriptionThis interface define a group of input ports.This interface define a Module.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.diffanaClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This enum define the parallelization modes of a step.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.expressionClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This enum define the parallelization modes of a step.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.expression.hadoopClassDescriptionThis interface define a group of input ports.This interface define a Module.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.expression.localClassDescriptionThis interface define a Module.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.fastqcClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.generatorsClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.mappingClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This class define a parameter.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.mapping.hadoopClassDescriptionThis interface define a group of input ports.This interface define a Module.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.mapping.localClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This enum define the parallelization modes of a step.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.mgmt.hadoopClassDescriptionThis interface define a Module.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.mgmt.uploadClassDescriptionThis interface define a Module.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.multiqcClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.modules.singlecellClassDescriptionThis interface define a group of input ports.This interface define a Module.This interface define a group of output ports.This class define a parameter.This interface define the context of a step.This class define the result of a step.This interface define a step status.
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Classes in fr.ens.biologie.genomique.eoulsan.core used by fr.ens.biologie.genomique.eoulsan.uiClassDescriptionThis interface define a step of the workflow.This enum define the states of the steps.This interface define a Workflow.
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