Open-Source Software for 'Omic' Data Analysis and Visualization
Add annotations
Add assays
Add barcode plot metadata
Add enrichment results
Add linkouts to external resources in the enrichments table
Add feature metadata
Add mapping object
Add meta-feature metadata
Add linkouts to external resources in the metaFeatures table
Add models
Add overlaps between annotation gene sets
Add custom plotting functions
Add reports
Add inference results
Add linkouts to external resources in the results table
Add sample metadata
Add tests
basal.vs.lp from Bioconductor workflow RNAseq123
basal.vs.ml from Bioconductor workflow RNAseq123
cam.BasalvsLP from Bioconductor workflow RNAseq123
cam.BasalvsML from Bioconductor workflow RNAseq123
Combine two or more studies
Create a study
Export a study
Get annotations from a study
Get assays from a study
Get data for barcode and violin plots
Get barcodes from a study
Get enrichments from a study
getEnrichmentsIntersection
Get enrichments table linkouts from a study
Get enrichments network from a study
Get enrichments table from a study
getEnrichmentsUpset
Get favicon URLs for table linkouts
Get features from a study
Get installed OmicNavigator studies
Get the shared features in a network link
Get mapping object from a study
Get metaFeatures from a study
Get metaFeatures table linkouts from a study
Get metaFeatures for a given feature
Get models from a study
Get the features in a network node
Get overlaps from a study
Get version of OmicNavigator package
Get plots from a study
Get plotting data
Get link to report
Get reports from a study
Get results from a study
getResultsIntersection
Get results table linkouts from a study
Get results table from a study
getResultsUpset
Get samples from a study
Get tests from a study
getUpsetCols
group from Bioconductor workflow RNAseq123
Import a study package
Install the OmicNavigator web app
Install a study as an R package
lane from Bioconductor workflow RNAseq123
lcpm from Bioconductor workflow RNAseq123
List available studies and their metadata
Mm.c2 from Bioconductor workflow RNAseq123
OmicNavigator
Plot a feature using a custom plotting function
Remove an installed study R package
samplenames from Bioconductor workflow RNAseq123
Shared parameters for add functions
Shared sections for data objects
Shared parameters for get functions
Shared parameters for upset functions
Start app on local machine
Summarize elements of OmicNavigator study
Validate a study
A tool for interactive exploration of the results from 'omics' experiments to facilitate novel discoveries from high-throughput biology. The software includes R functions for the 'bioinformatician' to deposit study metadata and the outputs from statistical analyses (e.g. differential expression, enrichment). These results are then exported to an interactive JavaScript dashboard that can be interrogated on the user's local machine or deployed online to be explored by collaborators. The dashboard includes 'sortable' tables, interactive plots including network visualization, and fine-grained filtering based on statistical significance.
Useful links