miRComb Files

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####  README for miRComb and miRData packages  ####
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I. Package installation
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I.a. Linux/Mac users
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Download miRComb and miRData to your local folder. Into R session, type:

install.packages("miRData_x.x.tar.gz")
install.packages("miRComb_x.x.tar.gz")


Other R/Bioconductor packages are needed, if you want to install all of them, type:

install.packages(c("gplots","gtools","network","WriteXLS","Hmisc","glmnet","scatterplot3d",
"VennDiagram","xtable","survival","pheatmap","mvoutiler","mclust"))
source("http://www.bioconductor.org/biocLite.R")
biocLite(c("RankProd","GOstats","limma","RamiGO","circlize","ReactomePA","DESeq","DO.db"))

I.b. Windows users
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MiRComb and miRData packages can be downloaded here to your local folder: http://sourceforge.net/projects/mircomb/files/WindowsVersions/

Into R session type:

install.packages("miRData_x.x.zip")
install.packages("miRComb_x.x.zip")

Other R/Bioconductor packages are needed, if you want to install all of them, type:

install.packages(c("gplots","gtools","network","WriteXLS","Hmisc","glmnet","scatterplot3d",
"VennDiagram","xtable","survival","pheatmap","mvoutlier","mclust"))
source("http://www.bioconductor.org/biocLite.R")
biocLite(c("RankProd","GOstats","limma","RamiGO","circlize","ReactomePA","DESeq","DO.db"))



II. Use
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If the package has been useful for you, we will be very grateful if you can cite our article:

Vila-Casadesús M, Gironella M, Lozano JJ (2016) MiRComb: An R Package to Analyse miRNA-mRNA Interactions. Examples across Five Digestive Cancers. PLoS ONE 11(3): e0151127. doi:10.1371/journal.pone.0151127



III. Comments / problems
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If you have any other question/problem regarding to installation, or you have further comments don't hesitate to write us (maria.vila@ciberehd.org): we will try to answer as soon as possible.



Many thanks and enjoy the software!