canvasXpress - Visualization Package for CanvasXpress in R

Enables creation of visualizations using the CanvasXpress framework in R. CanvasXpress is a standalone JavaScript library for reproducible research with complete tracking of data and end-user modifications stored in a single PNG image that can be played back. See <https://www.canvasxpress.org> for more information.

Last updated 8 hours ago

analyticsbioinformaticschartchartingdashdashboarddata-analyticsdata-sciencedata-visualizationgenomicsgraphsjavascriptnetworknetwork-visualizationpythonreproducible-researchshinyvisualization

11.32 score 294 stars 145 scripts 1.1k downloads

periscope - Enterprise Streamlined 'Shiny' Application Framework

An enterprise-targeted scalable and UI-standardized 'shiny' framework including a variety of developer convenience functions with the goal of both streamlining robust application development while assisting with creating a consistent user experience regardless of application or developer.

Last updated 23 days ago

7.02 score 18 stars 73 scripts 395 downloads

DGEobj - Differential Gene Expression (DGE) Analysis Results Data Object

Provides a flexible container to manage and annotate Differential Gene Expression (DGE) analysis results (Smythe et. al (2015) <doi:10.1093/nar/gkv007>). The DGEobj has data slots for row (gene), col (samples), assays (matrix n-rows by m-samples dimensions) and metadata (not keyed to row, col, or assays). A set of accessory functions to deposit, query and retrieve subsets of a data workflow has been provided. Attributes are used to capture metadata such as species and gene model, including reproducibility information such that a 3rd party can access a DGEobj history to see how each data object was created or modified. Since the DGEobj is customizable and extensible it is not limited to RNA-seq analysis types of workflows -- it can accommodate nearly any data analysis workflow that starts from a matrix of assays (rows) by samples (columns).

Last updated 23 days ago

5.60 score 2 stars 2 dependents 33 scripts 359 downloads

DGEobj.utils - Differential Gene Expression (DGE) Analysis Utility Toolkit

Provides a function toolkit to facilitate reproducible RNA-Seq Differential Gene Expression (DGE) analysis (Law (2015) <doi:10.12688/f1000research.9005.3>). The tools include both analysis work-flow and utility functions: mapping/unit conversion, count normalization, accounting for unknown covariates, and more. This is a complement/cohort to the 'DGEobj' package that provides a flexible container to manage and annotate Differential Gene Expression analysis results.

Last updated 23 days ago

5.26 score 2 stars 1 dependents 30 scripts 389 downloads

canvasXpress.data - Datasets for the 'canvasXpress' Package

Contains the prepared data that is needed for the 'shiny' application examples in the 'canvasXpress' package. This package also includes datasets used for automated 'testthat' tests. Scotto L, Narayan G, Nandula SV, Arias-Pulido H et al. (2008) <doi:10.1002/gcc.20577>. Davis S, Meltzer PS (2007) <doi:10.1093/bioinformatics/btm254>.

Last updated 4 years ago

3.48 score 1 stars 3 scripts 251 downloads