bigPint
This package is for version 3.10 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see bigPint.
Big multivariate data plotted interactively
Bioconductor version: 3.10
Methods for visualizing large multivariate datasets using static and interactive scatterplot matrices, parallel coordinate plots, volcano plots, and litre plots. Includes examples for visualizing RNA-sequencing datasets and differentially expressed genes.
Author: Lindsay Rutter [aut, cre], Dianne Cook [aut]
Maintainer: Lindsay Rutter <lindsayannerutter at gmail.com>
citation("bigPint")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("bigPint")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("bigPint")| Alternatives to data metrics object | HTML | R Script |
| bigPint Vignette | HTML | R Script |
| Creating data metrics object | HTML | R Script |
| Data metrics object | HTML | R Script |
| Data object | HTML | R Script |
| Hierarchical clustering | HTML | R Script |
| Installation | HTML | R Script |
| Introduction to bigPint plots | HTML | R Script |
| Producing interactive plots | HTML | R Script |
| Producing static plots | HTML | R Script |
| Recommended RNA-seq pipeline | HTML | R Script |
| Research paper | HTML | R Script |
| Reference Manual |
Details
| biocViews | Clustering, DataImport, DifferentialExpression, GeneExpression, MultipleComparison, Normalization, Preprocessing, QualityControl, RNASeq, Sequencing, Software, Transcription, Visualization |
| Version | 1.2.2 |
| In Bioconductor since | BioC 3.9 (R-3.6) (5 years) |
| License | GPL-3 |
| Depends | R (>= 3.6.0) |
| Imports | dplyr (>= 0.7.2), GGally (>= 1.3.2), ggplot2 (>= 2.2.1), graphics (>= 3.5.0), grDevices (>= 3.5.0), grid (>= 3.5.0), gridExtra (>= 2.3), hexbin (>= 1.27.1), Hmisc (>= 4.0.3), htmlwidgets (>= 0.9), methods (>= 3.5.2), plotly (>= 4.7.1), plyr (>= 1.8.4), RColorBrewer (>= 1.1.2), reshape (>= 0.8.7), shiny (>= 1.0.5), shinycssloaders (>= 0.2.0), shinydashboard (>= 0.6.1), stats (>= 3.5.0), stringr (>= 1.3.1), tidyr (>= 0.7.0), utils (>= 3.5.0) |
| System Requirements | |
| URL | https://github.com/lindsayrutter/bigPint |
| Bug Reports | https://github.com/lindsayrutter/bigPint/issues |
See More
| Suggests | BiocGenerics(>= 0.29.1), data.table (>= 1.11.8), EDASeq(>= 2.14.0), edgeR(>= 3.22.2), gtools (>= 3.5.0), knitr (>= 1.13), matrixStats (>= 0.53.1), rmarkdown (>= 1.10), roxygen2 (>= 3.0.0), RUnit (>= 0.4.32), tibble (>= 1.4.2) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | bigPint_1.2.2.tar.gz |
| Windows Binary | bigPint_1.2.2.zip |
| Mac OS X 10.11 (El Capitan) | bigPint_1.2.2.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/bigPint |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/bigPint |
| Bioc Package Browser | https://code.bioconductor.org/browse/bigPint/ |
| Package Short Url | https://bioconductor.org/packages/bigPint/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.10 | Source Archive |