Difference between revisions of "Biouml.plugins.bindingregions (plugin)"
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*[[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]] [[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]] [[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]] | ||
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:
Analysis of Binding Regions
- Analysis of Cis-Regulatory Modules
- Binding regions summary
- CRISPR Cas9 and specific oligonucleotides
- ChIP-Seq characteristics distribution
- ChIP-Seq peaks clusterization
- Cis-module identification
- Cis-module sets near given genes
- Classification analysis
- Cluster analysis
- Common and IPS scores correlation
- Convert files to tracks
- Correlations of best sites
- Count olig frequencies
- Create matrix by mixture of normal components
- Data matrix operations
- Distinct TF classes
- Fantom analysis
- Filtration of predicted sites by filters
- GTRD analysis
- GTRD analysis advanced
- Gathering genome statistics
- IPS ROC-curves
- IPS prediction
- IPS-scores in SNPs
- Identical best site ROC-curves
- Identification of cis-regulatory modules with given pattern of TF-classes
- Identification of composite elements by filters
- LS-regression analysis
- Locations of best sites
- Matrix comparison
- Matrix derivation
- Merge binding regions for cell-lines
- Mixture of normal components
- Multivariate regression analysis
- Multivariate sample analysis
- Non-merged ChIP-Seq tracks summary
- Oligonucleotides in sequence samples
- Peak finders comparison
- Prediction of TF-binding sites of given TF
- ROC curves for best sites union
- ROC-curves in clusterized peaks
- ROC-curves in grouped peaks
- ROC-curves in overlapped ChIP-Seq peaks
- Regression analysis
- Ribo-Seq and mRNA features forming
- SNP regions in genome
- SNPs in binding regions
- Summary on AUCs
- Transform track to table
- Two multivariate sample analysis
- Univariate sample analysis
- Univariate samples analysis
- lincRNA and mRNA features
