WikiBot: Automatic synchronization with BioUML

2020-12-09T11:14:36Z

Automatic synchronization with BioUML

WikiBot: Protected "Analysis of Binding Regions (analysis)": Autogenerated page (‎[edit=sysop] (indefinite))

2014-01-13T04:18:54Z

Protected "Analysis of Binding Regions (analysis)": Autogenerated page (‎[edit=sysop] (indefinite))

WikiBot: Automatic synchronization with BioUML

2014-01-13T04:18:53Z

Automatic synchronization with BioUML

New page

;Analysis title
:[[File:Default-analysis-icon.png]] Analysis of Binding Regions
;Provider
:[[Institute of Systems Biology]]
;Class
:{{Class|biouml.plugins.bindingregions.analysis.BindingRegions}}
;Plugin
:[[Biouml.plugins.bindingregions (plugin)|biouml.plugins.bindingregions (Binding-regions related analyses)]]

==== Parameters: ====

* '''MODE''' – MODE defines the concrete session of given analysis.
* '''Exp parameters1''' – Exp parameters1
** '''Path to Genome Sequences''' – Path to Genome Sequences
* '''Exp parameters2''' – Exp parameters2
** '''Path to Outputs''' – Path to Outputs
* '''Exp parameters3''' – Exp parameters3
** '''Path to input tracks''' – Path to input tracks
* '''Exp parameters4''' – Exp parameters4
** '''Specie''' – Specie
* '''Exp parameters5''' – Exp parameters5
** '''Path to Auxiliary Tables''' – Path to Auxiliary Tables
* '''Exp parameters6''' – Exp parameters6
** '''Path to Single Input Track''' – Path to Single Input Track
* '''Exp parameters7''' – Exp parameters7
** '''tfClass''' – Class of Transcription Factor
* '''Exp parameters8''' – Exp parameters8
** '''Path to SiteModel''' – Path to SiteModel
* '''Exp parameters9''' – Exp parameters9
** '''Path to Inputs''' – Path to Inputs
* '''Exp parameters10''' – Exp parameters10
** '''Path to Matrices''' – Path to Matrices
* '''Exp parameters11''' – Exp parameters11
** '''Path to Matrix''' – Path to Matrix
* '''Exp parameters12''' – Exp parameters12
** '''Minimal Number of Overlaps''' – Minimal Number of Overlaps
* '''Exp parameters13''' – Exp parameters13
** '''Number of mixture components''' – Number of mixture components
* '''Exp parameters14''' – Exp parameters14
** '''p_value''' – p_value
* '''Exp parameters15''' – Exp parameters15
** '''Path to Collection of creating matrices''' – Path to Collection of creating matrices
* '''Exp parameters16''' – Exp parameters16
** '''Base Name of Creating Matrices''' – Base Name of Creating Matrices
* '''Exp parameters17''' – Exp parameters17
** '''Maximal Number of Iterations''' – Maximal Number of Iterations
* '''Exp parameters18''' – Exp parameters18
** '''Number of Matrices Will Be Constructed''' – Number of Matrices Will Be Constructed
* '''Exp parameters19''' – Exp parameters19
** '''consensus''' – consensus
* '''Exp parameters20''' – Exp parameters20
** '''isInitialMatrixGivenByConsensus''' – is initial matrix given by consensus? (true or false)
* '''Exp parameters21''' – Exp parameters21
** '''oligLength''' – length of oligs
* '''Exp parameters22''' – Exp parameters22
** '''IPS threshold''' – IPS threshold
* '''Exp parameters23''' – Exp parameters23
** '''Percentage of Best Sites''' – Percentage of Best Sites
* '''Exp parameters24''' – Exp parameters24
** '''toRemoveAlu''' – Do you want to remove Alu-repeats? (true or false)
* '''Exp parameters25''' – Exp parameters25
** '''isLogTransformation''' – Do you want to consider log-models? (true or false)
* '''Exp parameters27''' – Exp parameters27
** '''isAroundSummit''' – is around summit? (true or false)
* '''Exp parameters28''' – Exp parameters28
** '''Path to ChIP-Seq Track''' – Path to ChIP-Seq Track
* '''Exp parameters29''' – Exp parameters29
** '''minimal length of sequence region''' – minimal length of sequence region
* '''Exp parameters30''' – Exp parameters30
** '''Path to input tracks2''' – Path to input tracks2

[[Category:Analyses]]
[[Category:BSA (analyses group)]]
[[Category:ISB analyses]]
[[Category:Autogenerated pages]]

@@ Line 71: / Line 71: @@
 [[Category:Analyses]]
-[[Category:BSA (analyses group)]]
+[[Category:Binding regions (analyses group)]]
 [[Category:ISB analyses]]
 [[Category:Autogenerated pages]]

Analysis of Binding Regions (analysis) - Revision history

WikiBot: Automatic synchronization with BioUML

WikiBot: Protected "Analysis of Binding Regions (analysis)": Autogenerated page (‎[edit=sysop] (indefinite))

WikiBot: Automatic synchronization with BioUML