systemPipeShiny - systemPipeShiny: An Interactive Framework for Workflow Management and Visualization

systemPipeShiny (SPS) extends the widely used systemPipeR (SPR) workflow environment with a versatile graphical user interface provided by a Shiny App. This allows non-R users, such as experimentalists, to run many systemPipeR’s workflow designs, control, and visualization functionalities interactively without requiring knowledge of R. Most importantly, SPS has been designed as a general purpose framework for interacting with other R packages in an intuitive manner. Like most Shiny Apps, SPS can be used on both local computers as well as centralized server-based deployments that can be accessed remotely as a public web service for using SPR’s functionalities with community and/or private data. The framework can integrate many core packages from the R/Bioconductor ecosystem. Examples of SPS’ current functionalities include: (a) interactive creation of experimental designs and metadata using an easy to use tabular editor or file uploader; (b) visualization of workflow topologies combined with auto-generation of R Markdown preview for interactively designed workflows; (d) access to a wide range of data processing routines; (e) and an extendable set of visualization functionalities. Complex visual results can be managed on a 'Canvas Workbench’ allowing users to organize and to compare plots in an efficient manner combined with a session snapshot feature to continue work at a later time. The present suite of pre-configured visualization examples. The modular design of SPR makes it easy to design custom functions without any knowledge of Shiny, as well as extending the environment in the future with contributions from the community.

Last updated 4 months ago

shinyappsinfrastructuredataimportsequencingqualitycontrolreportwritingexperimentaldesignclusteringbioconductorbioconductor-packagedata-visualizationshinysystempiper

7.03 score 33 stars 36 scripts 236 downloads

spsComps - 'systemPipeShiny' UI and Server Components

The systemPipeShiny (SPS) framework comes with many UI and server components. However, installing the whole framework is heavy and takes some time. If you would like to use UI and server components from SPS in your own Shiny apps, do not hesitate to try this package.

Last updated 1 years ago

6.55 score 31 stars 4 dependents 63 scripts 625 downloads

drawer - An Interactive HTML Image Editing Tool

An interactive image editing tool that can be added as part of the HTML in Shiny, R markdown or any type of HTML document. Often times, plots, photos are embedded in the web application/file. 'drawer' can take screenshots of these image-like elements, or any part of the HTML document and send to an image editing space called 'canvas' to allow users immediately edit the screenshot(s) within the same document. Users can quickly combine, compare different screenshots, upload their own images and maybe make a scientific figure.

Last updated 2 years ago

5.03 score 12 stars 1 dependents 3 scripts 184 downloads

spsUtil - 'systemPipeShiny' Utility Functions

The systemPipeShiny (SPS) framework comes with many useful utility functions. However, installing the whole framework is heavy and takes some time. If you like only a few useful utility functions from SPS, install this package is enough.

Last updated 3 years ago

4.26 score 4 stars 3 dependents 7 scripts 330 downloads