Difference between revisions of "Biouml.plugins.bindingregions (plugin)"

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:[[Institute of Systems Biology]]
 
:[[Institute of Systems Biology]]
 
;Version
 
;Version
:0.9.6
+
:0.9.10
 +
 
 +
=== Extension points ===
 +
Extension points defined in this plugin:
 +
*[[Site model factory (extension point)|biouml.plugins.bindingregions.siteModelFactory]]
  
 
=== Analysis methods ===
 
=== Analysis methods ===
 
Analysis methods defined in this plugin:
 
Analysis methods defined in this plugin:
 +
*[[File:Default-analysis-icon.png]] [[Analysis of Binding Regions (analysis)|Analysis of Binding Regions]]
 
*[[File:Default-analysis-icon.png]] [[Analysis of Cis-Regulatory Modules (analysis)|Analysis of Cis-Regulatory Modules]]
 
*[[File:Default-analysis-icon.png]] [[Analysis of Cis-Regulatory Modules (analysis)|Analysis of Cis-Regulatory Modules]]
 
*[[File:Default-analysis-icon.png]] [[Binding regions summary (analysis)|Binding regions summary]]
 
*[[File:Default-analysis-icon.png]] [[Binding regions summary (analysis)|Binding regions summary]]
 +
*[[File:Default-analysis-icon.png]] [[CRISPR Cas9 and specific oligonucleotides (analysis)|CRISPR Cas9 and specific oligonucleotides]]
 
*[[File:Default-analysis-icon.png]] [[ChIP-Seq characteristics distribution (analysis)|ChIP-Seq characteristics distribution]]
 
*[[File:Default-analysis-icon.png]] [[ChIP-Seq characteristics distribution (analysis)|ChIP-Seq characteristics distribution]]
 +
*[[File:Default-analysis-icon.png]] [[ChIP-Seq peaks clusterization (analysis)|ChIP-Seq peaks clusterization]]
 
*[[File:Default-analysis-icon.png]] [[Cis-module identification (analysis)|Cis-module identification]]
 
*[[File:Default-analysis-icon.png]] [[Cis-module identification (analysis)|Cis-module identification]]
 +
*[[File:Default-analysis-icon.png]] [[Cis-module sets near given genes (analysis)|Cis-module sets near given genes]]
 +
*[[File:Default-analysis-icon.png]] [[Classification analysis]]
 +
*[[File:Default-analysis-icon.png]] [[Cluster analysis]]
 
*[[File:Default-analysis-icon.png]] [[Common and IPS scores correlation (analysis)|Common and IPS scores correlation]]
 
*[[File:Default-analysis-icon.png]] [[Common and IPS scores correlation (analysis)|Common and IPS scores correlation]]
 +
*[[File:Default-analysis-icon.png]] [[Convert files to tracks (analysis)|Convert files to tracks]]
 
*[[File:Default-analysis-icon.png]] [[Correlations of best sites (analysis)|Correlations of best sites]]
 
*[[File:Default-analysis-icon.png]] [[Correlations of best sites (analysis)|Correlations of best sites]]
 
*[[File:Default-analysis-icon.png]] [[Count olig frequencies (analysis)|Count olig frequencies]]
 
*[[File:Default-analysis-icon.png]] [[Count olig frequencies (analysis)|Count olig frequencies]]
 
*[[File:Default-analysis-icon.png]] [[Create matrix by mixture of normal components (analysis)|Create matrix by mixture of normal components]]
 
*[[File:Default-analysis-icon.png]] [[Create matrix by mixture of normal components (analysis)|Create matrix by mixture of normal components]]
*[[File:Default-analysis-icon.png]] [[Create matrix by mixture of normal components (ChIP-seq) (analysis)|Create matrix by mixture of normal components (ChIP-seq)]]
+
*[[File:Default-analysis-icon.png]] [[Data matrix operations (analysis)|Data matrix operations]]
 
*[[File:Default-analysis-icon.png]] [[Distinct TF classes (analysis)|Distinct TF classes]]
 
*[[File:Default-analysis-icon.png]] [[Distinct TF classes (analysis)|Distinct TF classes]]
 +
*[[File:Default-analysis-icon.png]] [[Fantom analysis]]
 +
*[[File:Default-analysis-icon.png]] [[Filtration of predicted sites by filters (analysis)|Filtration of predicted sites by filters]]
 +
*[[File:Default-analysis-icon.png]] [[GTRD analysis]]
 +
*[[File:Default-analysis-icon.png]] [[GTRD analysis advanced (analysis)|GTRD analysis advanced]]
 
*[[File:Default-analysis-icon.png]] [[Gathering genome statistics (analysis)|Gathering genome statistics]]
 
*[[File:Default-analysis-icon.png]] [[Gathering genome statistics (analysis)|Gathering genome statistics]]
 
*[[File:Default-analysis-icon.png]] [[IPS ROC-curves (analysis)|IPS ROC-curves]]
 
*[[File:Default-analysis-icon.png]] [[IPS ROC-curves (analysis)|IPS ROC-curves]]
 
*[[File:Default-analysis-icon.png]] [[IPS prediction (analysis)|IPS prediction]]
 
*[[File:Default-analysis-icon.png]] [[IPS prediction (analysis)|IPS prediction]]
 
*[[File:Default-analysis-icon.png]] [[IPS-scores in SNPs (analysis)|IPS-scores in SNPs]]
 
*[[File:Default-analysis-icon.png]] [[IPS-scores in SNPs (analysis)|IPS-scores in SNPs]]
*[[File:Default-analysis-icon.png]] [[Identical best site ROC curves (analysis)|Identical best site ROC curves]]
+
*[[File:Default-analysis-icon.png]] [[Identical best site ROC-curves (analysis)|Identical best site ROC-curves]]
 +
*[[File:Default-analysis-icon.png]] [[Identification of cis-regulatory modules with given pattern of TF-classes (analysis)|Identification of cis-regulatory modules with given pattern of TF-classes]]
 +
*[[File:Default-analysis-icon.png]] [[Identification of composite elements by filters (analysis)|Identification of composite elements by filters]]
 +
*[[File:Default-analysis-icon.png]] [[LS-regression analysis]]
 
*[[File:Default-analysis-icon.png]] [[Locations of best sites (analysis)|Locations of best sites]]
 
*[[File:Default-analysis-icon.png]] [[Locations of best sites (analysis)|Locations of best sites]]
 +
*[[File:Default-analysis-icon.png]] [[Matrix comparison (analysis)|Matrix comparison]]
 +
*[[File:Default-analysis-icon.png]] [[Matrix derivation (analysis)|Matrix derivation]]
 
*[[File:Default-analysis-icon.png]] [[Merge binding regions for cell-lines (analysis)|Merge binding regions for cell-lines]]
 
*[[File:Default-analysis-icon.png]] [[Merge binding regions for cell-lines (analysis)|Merge binding regions for cell-lines]]
 
*[[File:Default-analysis-icon.png]] [[Mixture of normal components (analysis)|Mixture of normal components]]
 
*[[File:Default-analysis-icon.png]] [[Mixture of normal components (analysis)|Mixture of normal components]]
 +
*[[File:Default-analysis-icon.png]] [[Multivariate regression analysis]]
 +
*[[File:Default-analysis-icon.png]] [[Multivariate sample analysis]]
 
*[[File:Default-analysis-icon.png]] [[Non-merged ChIP-Seq tracks summary (analysis)|Non-merged ChIP-Seq tracks summary]]
 
*[[File:Default-analysis-icon.png]] [[Non-merged ChIP-Seq tracks summary (analysis)|Non-merged ChIP-Seq tracks summary]]
 +
*[[File:Default-analysis-icon.png]] [[Oligonucleotides in sequence samples (analysis)|Oligonucleotides in sequence samples]]
 +
*[[File:Default-analysis-icon.png]] [[Peak finders comparison (analysis)|Peak finders comparison]]
 +
*[[File:Default-analysis-icon.png]] [[Prediction of TF-binding sites of given TF (analysis)|Prediction of TF-binding sites of given TF]]
 
*[[File:Default-analysis-icon.png]] [[ROC curves for best sites union (analysis)|ROC curves for best sites union]]
 
*[[File:Default-analysis-icon.png]] [[ROC curves for best sites union (analysis)|ROC curves for best sites union]]
*[[File:Default-analysis-icon.png]] [[ROC curves in grouped peaks (analysis)|ROC curves in grouped peaks]]
+
*[[File:Default-analysis-icon.png]] [[ROC-curves in clusterized peaks (analysis)|ROC-curves in clusterized peaks]]
 +
*[[File:Default-analysis-icon.png]] [[ROC-curves in grouped peaks (analysis)|ROC-curves in grouped peaks]]
 +
*[[File:Default-analysis-icon.png]] [[ROC-curves in overlapped ChIP-Seq peaks (analysis)|ROC-curves in overlapped ChIP-Seq peaks]]
 +
*[[File:Default-analysis-icon.png]] [[Regression analysis]]
 +
*[[File:Default-analysis-icon.png]] [[Ribo-Seq and mRNA features forming (analysis)|Ribo-Seq and mRNA features forming]]
 
*[[File:Default-analysis-icon.png]] [[SNP regions in genome (analysis)|SNP regions in genome]]
 
*[[File:Default-analysis-icon.png]] [[SNP regions in genome (analysis)|SNP regions in genome]]
 
*[[File:Default-analysis-icon.png]] [[SNPs in binding regions (analysis)|SNPs in binding regions]]
 
*[[File:Default-analysis-icon.png]] [[SNPs in binding regions (analysis)|SNPs in binding regions]]
 +
*[[File:Default-analysis-icon.png]] [[Summary on AUCs (analysis)|Summary on AUCs]]
 +
*[[File:Default-analysis-icon.png]] [[Transform track to table (analysis)|Transform track to table]]
 +
*[[File:Default-analysis-icon.png]] [[Two multivariate sample analysis]]
 +
*[[File:Default-analysis-icon.png]] [[Univariate sample analysis]]
 +
*[[File:Default-analysis-icon.png]] [[Univariate samples analysis]]
 +
*[[File:Default-analysis-icon.png]] [[LincRNA and mRNA features (analysis)|lincRNA and mRNA features]]
  
 
[[Category:Plugins]]
 
[[Category:Plugins]]
 
[[Category:ISB plugins]]
 
[[Category:ISB plugins]]
 
[[Category:Autogenerated pages]]
 
[[Category:Autogenerated pages]]

Latest revision as of 16:35, 12 March 2019

ID
biouml.plugins.bindingregions
Name
Binding-regions related analyses
Provider
Institute of Systems Biology
Version
0.9.10

[edit] Extension points

Extension points defined in this plugin:

[edit] Analysis methods

Analysis methods defined in this plugin:

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