R (>= 3.3.0), VariantAnnotation, AnnotationHub,
TxDb.Hsapiens.UCSC.hg19.knownGene,
TxDb.Mmusculus.UCSC.mm10.ensGene, org.Hs.eg.db, org.Mm.eg.db,
Homo.sapiens, BSgenome.Hsapiens.UCSC.hg19, biomaRt, BSgenome,
TxDb.Athaliana.BioMart.plantsmart22
R (>= 3.3.0), BSgenome.Scerevisiae.UCSC.sacCer3, Biostrings,
GenomicFeatures, MotifDb, S4Vectors,
TxDb.Scerevisiae.UCSC.sacCer3.sgdGene, motifStack,
org.Sc.sgd.db, seqLogo
R (>= 3.3.0), mzR, mzID, MSnID, MSnbase, rpx, MLInterfaces,
pRoloc, pRolocdata, MSGFplus, rols, hpar
R (>= 3.3.0), Glimma (>= 1.1.9), limma, edgeR, Mus.musculus
R (>= 3.3.0), BiocStyle, airway, Rsamtools, GenomicFeatures,
GenomicAlignments, BiocParallel, magrittr, DESeq2, vsn, dplyr,
ggplot2, pheatmap, RColorBrewer, PoiClaClu, ggbeeswarm,
genefilter, AnnotationDbi, org.Hs.eg.db, ReportingTools, Gviz,
sva, fission,
R (>= 3.3.0), edgeR, gplots, org.Mm.eg.db, GO.db
R (>= 3.3.0), GenomicRanges, GenomicAlignments, Biostrings,
Rsamtools, ShortRead, BiocParallel, rtracklayer,
VariantAnnotation, AnnotationHub, BSgenome.Hsapiens.UCSC.hg19,
RNAseqData.HNRNPC.bam.chr14
BiocStyle, knitr, readxl, matrixStats, flowCore, ggplot2,
reshape2, dplyr, limma, ggrepel, RColorBrewer, pheatmap,
FlowSOM, ConsensusClusterPlus, Rtsne, cowplot, lme4, multcomp,
captioner, ggjoy
knitcitations, bibtex, GenomeInfoDb, S4Vectors, GGtools,
GGdata, yri1kgv, snpStats, scatterplot3d, lumi, parallel,
foreach, doParallel, biglm, lumiHumanAll.db, rmeta,
SNPlocs.Hsapiens.dbSNP144.GRCh37, reshape2, ggplot2
gwascat, GenomicRanges, rtracklayer, Homo.sapiens,
BiocGenerics
AnnotationHub, knitr, ELMER, biomaRt,
BSgenome.Hsapiens.UCSC.hg19, circlize, c3net, ChIPseeker,
ComplexHeatmap, clusterProfiler, downloader (>= 0.4), gaia,
GenomicRanges, GenomeInfoDb, ggplot2, ggthemes, graphics,
minet, MotIV, motifStack, pathview, pbapply, parallel, rGADEM,
RTCGAToolbox, SummarizedExperiment, TCGAbiolinks,
TCGAWorkflowData, DT
VariantAnnotation, cgdv17, org.Hs.eg.db,
TxDb.Hsapiens.UCSC.hg19.knownGene, BSgenome.Hsapiens.UCSC.hg19,
PolyPhen.Hsapiens.dbSNP131
affy, limma, hgfocuscdf, knitr, rmarkdown
knitr, rmarkdown, BiocStyle, limma, minfi,
IlluminaHumanMethylation450kanno.ilmn12.hg19,
IlluminaHumanMethylation450kmanifest, RColorBrewer, missMethyl,
matrixStats, minfiData, Gviz, DMRcate, stringr,
FlowSorted.Blood.450k