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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("debrowser")
In most cases, you don't need to download the package archive at all.
debrowser
|
This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see debrowser.
debrowser: Interactive Differential Expresion Analysis Browser
Bioconductor version: 3.3
Bioinformatics platform containing interactive plots and tables for differential gene and region expression studies. Allows visualizing expression data much more deeply in an interactive and faster way. By changing the parameters, user can easily discover different parts of the data that like never have been done before. Manually creating and looking these plots takes time. With this system users can prepare plots without writing any code. Differential expression, PCA and clustering analysis are made on site and the results are shown in various plots such as scatter, bar, box, volcano, ma plots and Heatmaps.
Author: Alper Kucukural <alper.kucukural at umassmed.edu>, Nicholas Merowsky <nicholas.merowsky at umassmed.edu>, Manuel Garber <manuel.garber at umassmed.edu>
Maintainer: Alper Kucukural <alper.kucukural at umassmed.edu>
Citation (from within R,
enter citation("debrowser")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("debrowser")
Documentation
| HTML | R Script | DEBrowser Vignette |
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | ChIPSeq, Clustering, DifferentialExpression, GeneExpression, RNASeq, Sequencing, Software |
| Version | 1.0.10 |
| In Bioconductor since | BioC 3.3 (R-3.3) (< 6 months) |
| License | GPL-3 + file LICENSE |
| Depends | R (>= 3.3.0), shiny, ggvis, jsonlite, edgeR, shinyjs |
| Imports | clusterProfiler, DT, ReactomePA, ggplot2, RColorBrewer, annotate, gplots, AnnotationDbi, DESeq2, DOSE, igraph, grDevices, graphics, stats, utils, GenomicRanges, IRanges, S4Vectors, SummarizedExperiment, stringi, reshape2, org.Hs.eg.db, org.Mm.eg.db |
| LinkingTo | |
| Suggests | testthat, rmarkdown, knitr, R.rsp |
| SystemRequirements | |
| Enhances | |
| URL | https://github.com/UMMS-Biocore/debrowser |
| BugReports | https://github.com/UMMS-Biocore/debrowser/issues/new |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | debrowser_1.0.10.tar.gz |
| Windows Binary | debrowser_1.0.10.zip |
| Mac OS X 10.9 (Mavericks) | debrowser_1.0.10.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/debrowser/tree/release-3.3 |
| Package Short Url | http://bioconductor.org/packages/debrowser/ |
| Package Downloads Report | Download Stats |
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