chroGPS: chroGPS: visualizing the epigenome

We provide intuitive maps to visualize the association between genetic elements, with emphasis on epigenetics. The approach is based on Multi-Dimensional Scaling. We provide several sensible distance metrics, and adjustment procedures to remove systematic biases typically observed when merging data obtained under different technologies or genetic backgrounds.

AuthorOscar Reina, David Rossell
Date of publicationNone
MaintainerOscar Reina <oscar.reina@irbbarcelona.org>
LicenseGPL (>=2.14)
Version1.22.0

View on Bioconductor

Files in this package

chroGPS/DESCRIPTION
chroGPS/NAMESPACE
chroGPS/R
chroGPS/R/adjustPeaks.R chroGPS/R/clusGPS.R chroGPS/R/distGPS.R chroGPS/R/domainDist.R chroGPS/R/geneSetGPS.R chroGPS/R/getmodEncode.R chroGPS/R/gff2RDList.R chroGPS/R/gps2xgmml.R chroGPS/R/mds-class.R chroGPS/R/mds.R chroGPS/R/procrustesAdj.R
chroGPS/build
chroGPS/build/vignette.rds
chroGPS/data
chroGPS/data/datalist
chroGPS/data/s2.RData
chroGPS/data/s2Seq.RData
chroGPS/data/toydists.RData
chroGPS/inst
chroGPS/inst/NEWS
chroGPS/inst/doc
chroGPS/inst/doc/chroGPS.R
chroGPS/inst/doc/chroGPS.Rnw
chroGPS/inst/doc/chroGPS.pdf
chroGPS/man
chroGPS/man/addVar.Rd chroGPS/man/adjustPeaks.Rd chroGPS/man/boostMDS.Rd chroGPS/man/clusGPS-class.Rd chroGPS/man/clusGPS.Rd chroGPS/man/distGPS-class.Rd chroGPS/man/distGPS.Rd chroGPS/man/domainDist.Rd chroGPS/man/geneSetGPS.Rd chroGPS/man/getURL.Rd chroGPS/man/gff2RDList.Rd chroGPS/man/gps2xgmml.Rd chroGPS/man/mds-class.Rd chroGPS/man/mds.Rd chroGPS/man/mergeClusters.Rd chroGPS/man/procrustesAdj.Rd chroGPS/man/profileClusters.Rd chroGPS/man/s2.Rd chroGPS/man/splitDistGPS-class.Rd
chroGPS/vignettes
chroGPS/vignettes/chroGPS-cyto.png
chroGPS/vignettes/chroGPS-cyto3d.png
chroGPS/vignettes/chroGPS.Rnw
chroGPS/vignettes/mds-2d-3d.png
chroGPS/vignettes/mds3d_1.png
chroGPS/vignettes/references.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.