{{userText}}
{{dataSize}} Results
{{page}} of {{lastPage}}
| Show More | Showing {{pageSize}} of {{dataSize}} |
Loading
}}){kind=icon}
| {{column.title == null ? column.name : column.title}} | |
|---|---|
}}){kind=icon}
|
}}){kind=icon}
|
| {{value}} | |
Log in with your user
Create a new user
User profile
Remember password
{{computeToolName()}}
{{computeStatus()}}
{{computeDate()}}
{{table.dataSize}} job{{table.dataSize != 1 ? 's' : ''}}
{{table.page}} of {{table.lastPage}}
Job launched
{{model.path}}
{{file.name}}
{{study.description}}
{{study.type}}
{{study.status}}
{{study.diskUsage}} bytes
Microarray
Expression
One channel
Two channels
Data matrix
ID list
Annotation
Other
{{file.name}}
{{bioformatText}}
{{bread}}
{{files.length}} item{{files.length != 1 ? 's' : ''}}
The files must be on the server to select them.
You can upload files using the button
You can upload files using the button
You can create folders using the button
File browser
{{selectedStudy.name}}/{{selectedFile.path}}
Select file...
Job {{status}}
{{table.dataSize}} {{type}}{{table.dataSize != 1 ? 's' : ''}}
{{table.page}} of {{table.lastPage}}
File
- New session...
- Save session...
- Open session...
- Manage sessions...
- Import
- Network from SIF...
- Network from XLSX...
- Network from Text...
- Node attributes ...
- Edge attributes ...
- Export
- Network as SIF
- Network as SVG
- Node attributes as file
- Edge attributes as file
Network
- Edit network...
- Import network
- Reactome...
- Kegg...
- Intact...
- Select
- Nodes by attributes...
- Edges by attributes...
- All nodes
- First neighbourhood nodes
- Invert node selection
- All edges
- Adjacent edges
- Everything
- Layout
- Force directed
- Default
- Configure...
- Tree
- Circle
- Unsorted
- {{column.title}}
- Random
- Force directed
Attributes
- Edit node attributes...
- Edit edge attributes...
- Node visualization settings...
- Edge visualization settings...
- Import attributes from Cellbase...
Analysis
- Network analysis
- Communities structure detection
- Topological study
- Functional analysis
- Network enrichment
- Gene set network enrichment
- Single enrichment
Examples
- PPIs related to histone exchange and removal during nucleosome assembly and disassembly
- Reactome pathway of Insulin Synthesis and Processing
- PPI network with attributes
Configure
- Circle
- Square
- Ellipse
- Rectangle
- None
- Low
- Medium
- High
- Invisible
- 10
- 20
- 30
- 40
- 50
- 60
- 70
- 80
- 90
- 100
- 120
- 140
- 160
- 1
- 2
- 3
- 4
- 5
- 6
- 7
- 8
- 9
- 10
- None
- 8
- 10
- 12
- 14
- 16
- 18
- Directed
- Undirected
- Inhibited
- Dot
- Dot o
- 1
- 2
- 3
- 4
- 5
- 6
- 7
- 8
- 9
- 10
- None
- 8
- 10
- 12
- 14
- 16
- 18
- Force directed
- Circle
- Random
- All nodes
- First neighbour nodes
- Invert node selection
- All edges
- Adjacent edges
- Everything
- 45
- 90
- 180
- -45
- -90
- -180
Nodes:
{{networkViewer.vAttr.data.length}}
Edges:
{{networkViewer.eAttr.data.length}}
File: {{networkViewer.lastLoadedFileName}}
Session manager
You must be logged in to save your sessions.
No sessions found.
{{session.name}}
{{session.dateString}}
Import a network SIF file
{{table.dataSize}} item{{table.dataSize != 1 ? 's' : ''}}
{{table.page}} of {{table.lastPage}}
Import a network Text file
- Tab
- Comma
- Semicolon
- {{index}}
- none
- {{index}}
- {{index}}
{{table.dataSize}} item{{table.dataSize != 1 ? 's' : ''}}
{{table.page}} of {{table.lastPage}}
Import a network XLSX file
- {{sheet}}
- {{index}}
- none
- {{index}}
- {{index}}
{{table.dataSize}} item{{table.dataSize != 1 ? 's' : ''}}
{{table.page}} of {{table.lastPage}}
Import {{type}} attributes file
{{table.dataSize}} {{type}} attribute{{table.dataSize != 1 ? 's' : ''}}
{{table.page}} of {{table.lastPage}}
Edit Network
{{interactionMessage}}
{{table.dataSize}} {{view}}{{table.dataSize != 1 ? 's' : ''}}
{{table.page}} of {{table.lastPage}}
Edit and filter {{type}} attributes
Edit
Filters
No filters to show.
Click
Click
Attribute: {{filter.attributeName}}
rule: {{filter.match}} {{filter.attributeType}}
Value: {{filter.queryString}}
String
Number
Exact
Contains
Not contains
Equals
Not equal to
Greater than
Greater than or equal to
Less than
Less than or equal to
{{table.dataSize}} {{type}}{{table.dataSize != 1 ? 's' : ''}}
{{table.page}} of {{table.lastPage}}
Select {{type}}s by attributes
String
Number
Exact
Contains
Not contains
Equals
Not equal to
Greater than
Greater than or equal to
Less than
Less than or equal to
No active filters to show.
Attribute:
{{filter.attributeName}}
Rule:
{{filter.match}} {{filter.attributeType}}
Value:
{{filter.queryString}}
Node visualization settings
Label attr:
Label offset:
Label size:
Opacity:
Shape:
Color:
Stroke color:
Width:
Height:
Stroke size:
Area:
Stroke area:
X:
Y:
Edge visualization settings
Label attr:
Label size:
Opacity:
Shaft:
Head:
Bidirectional:
Color:
Size:
{{displayProperty}} render configuration
{{column.title}}
Categorical
Continuous
String
List
Attribute value
Render value
{{model.attribute}}
{{displayProperty}} rendering configuration
{{column.title}}
Categorical
Continuous
String
List
Attribute value
Render value
{{model.attribute}}
{{displayProperty}} rendering configuration
{{column.title}}
Attribute value
Render value
{{model.attribute}}
Import Cellbase attributes
{{spe.name}}
{{column.title}}
{{item.boxLabel}}
{{item.boxLabel}}
{{item.boxLabel}}
Import IntAct
{{spe.name}}
{{column.title}}
Network analysis: Communities structure detection
Fastgreedy
Walktrap
Infomap
No
Yes
No
Yes
{{column.title}}
A color has been assigned to the top communities.
Communities results are available as node attributes
Global modularity: {{results['Global modularity']}}
Number of communities with more than 2 nodes: {{results['Number of communities with more than 2 nodes']}}
Total number of communities: {{results['Total number of communities']}}
Network analysis: Topological study
Yes
No
Yes
No
{{column.title}}
Topology results are available as node attributes
Average nodes per component: {{results['Average nodes per component']}}
Average shorthest path length: {{results['Average shorthest path length']}}
Clustering coefficient: {{results['Clustering coefficient']}}
Diameter: {{results['Diameter']}}
Number of components: {{results['Number of components']}}
Number of edges: {{results['Number of edges']}}
Number of nodes: {{results['Number of nodes']}}
Kegg import
{{item.text}}
Reactome import
{{displayName}}
Force directed layout configuration
Node related settings
Edge related settings
Global settings
Network enrichment form
Gene set network enrichment form
Single enrichment form
Single enrichment
Reactome FI form
Options:
Filter terms by number of annotated ids in DB:
Select your data
Edit attributes
{{messageSave}}
Genotype stratification
{{message}}
For teaching activities with Babelomics we recommend you to use: courses.babelomics.org
There was an unexpected error:
This is maybe due to incorrect input. For more info about proper inputs, refer to the
documentation.
You can also download the example file.
For detailed information you can download the log file: If error persist, please contact babelomics crew at babelomics@cipf.es
For detailed information you can download the log file: If error persist, please contact babelomics crew at babelomics@cipf.es
RNASeq Normalization
Input parameters
No normalized data results
This is maybe due to incorrect input. For more info about proper inputs, refer to the
documentation.
You can also download the example file.
For more detailed information you can download the log file: If error persist, please contact babelomics crew at babelomics@cipf.es
For more detailed information you can download the log file: If error persist, please contact babelomics crew at babelomics@cipf.es
Normalized data results
RNA composition before normalization
RNA composition after normalization
Boxplot expression values before normalization
Boxplot expression values after normalization
RNASeq Differential expression
Input parameters
No results
This is maybe due to incorrect input. For more info about proper inputs, refer to the
documentation.
You can also download the example file.
For detailed information you can download the log file: If error persist, please contact babelomics crew at babelomics@cipf.es
For detailed information you can download the log file: If error persist, please contact babelomics crew at babelomics@cipf.es
Significative results
Voom graphics
Significative file
HeatMap
Network viewer
Continue processing
Single enrichment analysis
Gene set enrichment analysis
Network enrichment analysis
Gene set network enrichment analysis
Clustering
No significative results
There is no significative results, but you can download all the results:List 2: {{row[column.name].list2}}%
{{significativeTable.name}}
HeatMap
Dataset too large to be displayed
Network viewer
Continue processing
Single enrichment analysis
Gene set enrichment analysis
Network enrichment analysis
Network set enrichment analysis
Clustering
{{item.id}}: {{item.name}}
networkViewer =
Job information
{{msg}}
Babelomics 5
GENE EXPRESSION, GENOME VARIATION AND FUNCTIONAL PROFILING ANALYSIS SUITE
Note
Web optimized for Chrome. Only modern web browsers are fully supported, these include Chrome 36+, Firefox 36+, Safari 8+ and Opera 24+.
For teaching activities with Babelomics we recommend you to use: courses.babelomics.org
Processing
Normalization
NGS
RNA-Seq
Microarray one channel
Affymetrix
Agilent
Genepix
Microarray two channels
Agilent
Genepix
Edit
Edit your uploaded data
Data Matrix
Pre-processing
Expression
Unsupervised analysis
Clustering
Supervised analysis
Class prediction
Differential expression
Microarray
Class comparison
Correlation
Survival
RNA-seq
Class comparison
Genomics
Association analysis
Burden analysis
Cancer
OncodriveFM
OncodriveClust
Functional
Single enrichment
Fatigo
Gene set enrichment
Logistic model
Network enrichment
Snow
Gene set network enrichment
Network Miner
{{mode}}
{{cellbaseHost}}
{{opencgaHost}}
Babelomics 5
bioinfo.cipf.es: babelomics@cipf.es
Principe Felipe Research Center
2015