igvShiny - igvShiny: a wrapper of Integrative Genomics Viewer (IGV - an interactive tool for visualization and exploration integrated genomic data)
This package is a wrapper of Integrative Genomics Viewer (IGV). It comprises an htmlwidget version of IGV. It can be used as a module in Shiny apps.
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softwareshinyappssequencingcoverage
9.36 score 46 stars 1 dependents 188 scripts 412 downloadsigvR - igvR: integrative genomics viewer
Access to igv.js, the Integrative Genomics Viewer running in a web browser.
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visualizationthirdpartyclientgenomebrowsers
8.74 score 46 stars 148 scripts 696 downloadsgDRutils - A package with helper functions for processing drug response data
This package contains utility functions used throughout the gDR platform to fit data, manipulate data, and convert and validate data structures. This package also has the necessary default constants for gDR platform. Many of the functions are utilized by the gDRcore package.
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softwareinfrastructure
8.13 score 2 stars 4 dependents 54 scripts 327 downloadsgDRcore - Processing functions and interface to process and analyze drug dose-response data
This package contains core functions to process and analyze drug response data. The package provides tools for normalizing, averaging, and calculation of gDR metrics data. All core functions are wrapped into the pipeline function allowing analyzing the data in a straightforward way.
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softwareshinyappscpp
7.93 score 2 stars 1 dependents 38 scripts 346 downloadsgDRimport - Package for handling the import of dose-response data
The package is a part of the gDR suite. It helps to prepare raw drug response data for downstream processing. It mainly contains helper functions for importing/loading/validating dose-response data provided in different file formats.
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softwareinfrastructuredataimport
7.86 score 3 stars 1 dependents 27 scripts 388 downloadsgDRtestData - gDRtestData - R data package with testing dose response data
R package with internal dose-response test data. Package provides functions to generate input testing data that can be used as the input for gDR pipeline. It also contains qs2 files with MAE data processed by gDR.
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experimentdatatechnologydatadatapkg
6.46 score 2 stars 6 scriptsgDR - Umbrella package for R packages in the gDR suite
Package is a part of the gDR suite. It reexports functions from other packages in the gDR suite that contain critical processing functions and utilities. The vignette walks through the full processing pipeline for drug response analyses that the gDR suite offers.
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softwaredataimportshinyapps
6.37 score 2 stars 29 scripts 298 downloadsgDRstyle - A package with style requirements for the gDR suite
Package fills a helper package role for whole gDR suite. It helps to support good development practices by keeping style requirements and style tests for other packages. It also contains build helpers to make all package requirements met.
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softwareinfrastructure
6.23 score 3 stars 7 scripts 318 downloadsBrowserViz - BrowserViz: interactive R/browser graphics using websockets and JSON
Interactvive graphics in a web browser from R, using websockets and JSON.
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visualizationthirdpartyclient
6.08 score 2 stars 2 dependents 25 scripts 538 downloadsgDRplots - 'gDRplots'
gDRplots provides static visualization functions and dedicated helpers for the gDR drug response platform. Designed for high-throughput screening (HTS), pharmacogenomics, and chemical genomics research, it enables comprehensive analysis of single-agent, co-dilution, and drug combination cell viability assays. The package supports quality control (plate layouts, control mapping), data normalization inspection, dose-response curves, distribution boxplots, drug synergy heatmaps with overlaid isobolograms, and combination index plots. Additionally, it integrates with PRISM and DepMap datasets to generate volcano plots and correlation scatter plots for molecular feature associations.
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softwarevisualizationqualitycontrolnormalizationcellbasedassayspharmacogenomicsmicrotitreplateassay
4.49 score 26 scripts