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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
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debrowser: Interactive Differential Expresion Analysis Browser
Bioconductor version: Release (3.5)
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, users can easily discover different parts of the data that like never have been done before. Manually creating and looking these plots takes time. With DEBrowser 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>, 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 | 1.4.5 |
| In Bioconductor since | BioC 3.3 (R-3.3) (1.5 years) |
| License | GPL-3 + file LICENSE |
| Depends | R (>= 3.3.0), shiny, ggvis, jsonlite, shinyjs |
| Imports | DT, ggplot2, RColorBrewer, annotate, gplots, AnnotationDbi, DESeq2, DOSE, igraph, grDevices, graphics, stats, utils, GenomicRanges, IRanges, S4Vectors, SummarizedExperiment, stringi, reshape2, baySeq, d3heatmap, org.Hs.eg.db, org.Mm.eg.db, limma, edgeR, clusterProfiler, V8, methods, sva, shinydashboard, devtools, RCurl |
| 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.
| Source Package | debrowser_1.4.5.tar.gz |
| Windows Binary | debrowser_1.4.5.zip |
| Mac OS X 10.11 (El Capitan) | debrowser_1.4.5.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/debrowser |
| Package Short Url | http://bioconductor.org/packages/debrowser/ |
| Package Downloads Report | Download Stats |
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