EDDA

Package: EDDA
Type: Package
Title: Experimental Design in Differential Abundance analysis
Version: 1.10.0
Date: 2015-01-06
Author: Li Juntao, Luo Huaien, Chia Kuan Hui Burton, Niranjan Nagarajan
Maintainer: Chia Kuan Hui Burton <chiakhb@gis.a-star.edu.sg>, Niranjan Nagarajan <nagarajann@gis.a-star.edu.sg>
Description: EDDA can aid in the design of a range of common experiments such as RNA-seq, Nanostring assays, RIP-seq and Metagenomic sequencing, and enables researchers to comprehensively investigate the impact of experimental decisions on the ability to detect differential abundance. This work was published on 3 December 2014 at Genome Biology under the title "The importance of study design for detecting differentially abundant features in high-throughput experiments" (http://genomebiology.com/2014/15/12/527).
License: GPL (>= 2)
Depends: Rcpp (>= 0.10.4), parallel, methods, ROCR, DESeq, baySeq, snow, edgeR
Imports: graphics, stats, utils, parallel, methods, ROCR, DESeq,
baySeq, snow, edgeR
LinkingTo: Rcpp
biocViews: Sequencing, ExperimentalDesign, Normalization, RNASeq,
ChIPSeq
URL: http://edda.gis.a-star.edu.sg/
http://genomebiology.com/2014/15/12/527
NeedsCompilation: yes
Packaged: 2016-05-04 05:20:25 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'EDDA' ...
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include"   -fpic  -g -O2  -c cuffdiff.cpp -o cuffdiff.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o EDDA.so cuffdiff.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/EDDA/libs
** R
** data
** inst
** preparing package for lazy loading
No methods found in "baySeq" for requests: rbind
** help
*** installing help indices
  converting help for package 'EDDA'
    finding HTML links ... done
    BP                                      html  
    EDDA-package                            html  
    HBR                                     html  
    SingleCell                              html  
    Wu                                      html  
    computeAUC                              html  
    generateData                            html  
    plotPRC                                 html  
    plotROC                                 html  
    testDATs                                html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
No methods found in "baySeq" for requests: rbind
* DONE (EDDA)
Making 'packages.html' ... done