├── DESCRIPTION ├── LICENSE ├── NAMESPACE ├── R ├── classApiByPackage.R ├── dataBench.R ├── dbsnpPath.R ├── demoHN.R ├── dfHclustTab.R ├── dfWdepth.R ├── erbsScanner.R ├── intro.R ├── methods.R ├── modplot.R ├── multScan.R ├── parseIDF.R ├── ph525x.R ├── plotRanges.R ├── pngs.R ├── rainfall.R ├── reposition.R ├── seqc-eSet.R ├── sglproc.R ├── showz.R └── viewHreads14.R ├── data ├── alu19.rda ├── brcaMuts.rda ├── gwrngs19.rda ├── readES.rda ├── readMuts.rda ├── sampInfo_1kg.rda └── westraTransSel.rda ├── inst ├── csslib │ ├── bootstrap.css │ ├── images │ │ ├── glyphicons-halflings-white.png │ │ ├── glyphicons-halflings.png │ │ ├── sort_asc.png │ │ ├── sort_asc_disabled.png │ │ ├── sort_both.png │ │ ├── sort_desc.png │ │ └── sort_desc_disabled.png │ └── reprise.table.bootstrap.css ├── extdata │ ├── CompMatrix.tab │ ├── delG.int │ └── micS_AC.int ├── gmt │ ├── README.txt │ └── glioSets.gmt ├── jslib │ ├── bootstrap.js │ ├── jquery-1.8.0.min.js │ ├── jquery.dataTables-1.9.3.js │ ├── jquery.dataTables.columnFilter.js │ ├── jquery.dataTables.plugins.js │ └── jquery.dataTables.reprise.js └── pngs │ ├── CRANtop.png │ ├── GDSbrow.png │ ├── KEGGORTHpic.png │ ├── SYDHenc.png │ ├── SeqCconsist.png │ ├── anndbi1.png │ ├── anno1.png │ ├── anno2.png │ ├── asthDetail.png │ ├── asthFull.png │ ├── asthGEO.png │ ├── bisquick.png │ ├── boosStefRP.png │ ├── buildRep.png │ ├── databaseTypes.png │ ├── esetDet1.png │ ├── esetDet1.tiff │ ├── esetDet2.png │ ├── esetDet2.tiff │ ├── esetFreeH.png │ ├── firehose.png │ ├── geneModel.png │ ├── ggshot.png │ ├── grlanding.png │ ├── gwacat.png │ ├── johnson1.png │ ├── johnson2.png │ ├── kataegis.png │ ├── kraserr.png │ ├── metadb.png │ ├── ncbi38.png │ ├── obesManh.png │ ├── obesMeta.png │ ├── obesNets.png │ ├── obesSets.png │ ├── obesTitle.png │ ├── rauschSVschema.png │ ├── reactomeBrow.png │ ├── sensSpecSEQC.png │ ├── seqc.png │ ├── seqcAns.png │ ├── seqcCounting.png │ ├── seqcDesign.png │ ├── seqcFreeH.png │ ├── statmeth.png │ ├── summex.png │ ├── support.png │ ├── synTAS.png │ ├── synaptEE.png │ ├── synaptGO.png │ ├── workf1.png │ ├── xiongAbst.png │ ├── xiongAut.png │ ├── xiongDesign.png │ ├── xiongMSH2.png │ └── xiongSMN2.png ├── man ├── dfHclust.Rd ├── genemodel.Rd ├── modPlot.Rd ├── ph525x-package.Rd ├── rainfall.Rd └── reposition.Rd └── vignettes └── ph525x.Rmd /DESCRIPTION: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/genomicsclass/ph525x/HEAD/DESCRIPTION -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/genomicsclass/ph525x/HEAD/LICENSE -------------------------------------------------------------------------------- /NAMESPACE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/genomicsclass/ph525x/HEAD/NAMESPACE 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