Uses of Package
fr.ens.biologie.genomique.eoulsan.annotations

Packages that use fr.ens.biologie.genomique.eoulsan.annotations

Package	Description
fr.ens.biologie.genomique.eoulsan.annotations	This package define the annotations on Eoulsan classes plug-ins.
fr.ens.biologie.genomique.eoulsan.core.workflow	This package contains Eoulsan workflow dedicated classes.
fr.ens.biologie.genomique.eoulsan.data.protocols	This package contains class for protocols used by the DataFile classes.
fr.ens.biologie.genomique.eoulsan.modules	This package define the steps for the Eoulsan workflow.
fr.ens.biologie.genomique.eoulsan.modules.chipseq	This packages contains the ChIP-Seq modules.
fr.ens.biologie.genomique.eoulsan.modules.chipseq.peakcalling	This packages contains the peak-calling modules.
fr.ens.biologie.genomique.eoulsan.modules.chipseq.qc	This packages contains all the quality check modules for ChIP-Seq.
fr.ens.biologie.genomique.eoulsan.modules.diffana	This package contain all the classes related to the differential analysis step.
fr.ens.biologie.genomique.eoulsan.modules.expression	This package contain all the classes related to the expression step.
fr.ens.biologie.genomique.eoulsan.modules.expression.hadoop	This package contain all the classes related to the expression step in hadoop mode.
fr.ens.biologie.genomique.eoulsan.modules.expression.local	This package contain all the classes related to the expression step in local mode.
fr.ens.biologie.genomique.eoulsan.modules.fastqc	This package contain all the classes related to FastQC.
fr.ens.biologie.genomique.eoulsan.modules.generators	This package contain generator steps.
fr.ens.biologie.genomique.eoulsan.modules.mapping.hadoop	This package contain all the classes related to the mapping (reads filtering, mapping and alignments filtering) step in hadoop mode.
fr.ens.biologie.genomique.eoulsan.modules.mapping.local	This package contain all the classes related to the mapping (reads filtering, mapping and alignments filtering) step in local mode.
fr.ens.biologie.genomique.eoulsan.modules.mgmt.hadoop	This package contain classes related data management in Hadoop mode.
fr.ens.biologie.genomique.eoulsan.modules.mgmt.upload	This package contain classes related to upload data to HDFS and Cloud.
fr.ens.biologie.genomique.eoulsan.modules.multiqc
fr.ens.biologie.genomique.eoulsan.modules.singlecell

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.annotations

Class	Description
ExecutionMode	This class define an enum for the execution mode of Eoulsan.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.core.workflow

Class	Description
ExecutionMode	This class define an enum for the execution mode of Eoulsan.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.data.protocols

Class	Description
HadoopCompatible	This annotation is used to mark a plug-in class as usable in hadoop mode and local mode.
HadoopOnly	This annotation is used to mark a plug-in class as usable in hadoop mode only.
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules

Class	Description
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.
NoLog	This annotation is used to mark a step class that requires no log.
NoOutputDirectory	This annotation is used to mark a step class that requires no output directory.
RequiresAllPreviousSteps	This annotation is used to mark a step class that requires the all the previous step in the workflow file.
ReuseModuleInstance	This annotation is used to mark a module class that can reuse a module instance for each task.
Terminal	This annotation is used to mark a step class that is a terminal step.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.chipseq

Class	Description
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.chipseq.peakcalling

Class	Description
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.chipseq.qc

Class	Description
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.diffana

Class	Description
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.
RequiresAllPreviousSteps	This annotation is used to mark a step class that requires the all the previous step in the workflow file.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.expression

Class	Description
HadoopCompatible	This annotation is used to mark a plug-in class as usable in hadoop mode and local mode.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.expression.hadoop

Class	Description
HadoopOnly	This annotation is used to mark a plug-in class as usable in hadoop mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.expression.local

Class	Description
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.fastqc

Class	Description
HadoopCompatible	This annotation is used to mark a plug-in class as usable in hadoop mode and local mode.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.generators

Class	Description
Generator	This annotation is used to mark a step class that is a generator with user custom parameters.
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.mapping.hadoop

Class	Description
HadoopOnly	This annotation is used to mark a plug-in class as usable in hadoop mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.mapping.local

Class	Description
HadoopCompatible	This annotation is used to mark a plug-in class as usable in hadoop mode and local mode.
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.mgmt.hadoop

Class	Description
HadoopOnly	This annotation is used to mark a plug-in class as usable in hadoop mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.mgmt.upload

Class	Description
HadoopCompatible	This annotation is used to mark a plug-in class as usable in hadoop mode and local mode.
HadoopOnly	This annotation is used to mark a plug-in class as usable in hadoop mode only.
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.
Terminal	This annotation is used to mark a step class that is a terminal step.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.multiqc

Class	Description
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.

Classes in fr.ens.biologie.genomique.eoulsan.annotations used by fr.ens.biologie.genomique.eoulsan.modules.singlecell

Class	Description
LocalOnly	This annotation is used to mark a plug-in class as usable in local mode only.