Package: annotation
Version: 1.22.0
Depends: R (>= 3.3.0), VariantAnnotation, AnnotationHub,
        Organism.dplyr, TxDb.Hsapiens.UCSC.hg19.knownGene,
        TxDb.Hsapiens.UCSC.hg38.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
Suggests: knitr, rmarkdown, BiocStyle
License: Artistic-2.0
MD5sum: 999274e452004095ea0b88c6c76a3fc4
NeedsCompilation: no

Package: arrays
Version: 1.24.0
Depends: R (>= 3.0.0)
Suggests: affy, limma, hgfocuscdf, knitr, rmarkdown, BiocStyle
License: Artistic-2.0
MD5sum: 760b57eae67844508a872321c6614092
NeedsCompilation: no

Package: BiocMetaWorkflow
Version: 1.20.0
Suggests: BiocStyle, knitr, rmarkdown, BiocWorkflowTools
License: Artistic-2.0
MD5sum: 83072a19b8f33d5d25a09ddca72674ee
NeedsCompilation: no

Package: BP4RNAseq
Version: 1.8.0
Depends: R (>= 4.0.0)
Imports: dplyr, fastqcr, stringr, tidyr, stats, utils, magrittr,
        reticulate
Suggests: knitr, rmarkdown, testthat
License: GPL-2
MD5sum: 97b23acf95f68d229c34eee427251a00
NeedsCompilation: no

Package: CAGEWorkflow
Version: 1.14.0
Depends: R (>= 3.6.0), CAGEfightR, nanotubes
Suggests: knitr, magick, rmarkdown, BiocStyle, BiocWorkflowTools,
        pheatmap, ggseqlogo, viridis, magrittr, ggforce, ggthemes,
        tidyverse, dplyr, GenomicRanges, SummarizedExperiment,
        GenomicFeatures, BiocParallel, InteractionSet, Gviz, DESeq2,
        limma, edgeR, statmod, BiasedUrn, sva, TFBSTools, motifmatchr,
        pathview, BSgenome.Mmusculus.UCSC.mm9,
        TxDb.Mmusculus.UCSC.mm9.knownGene, org.Mm.eg.db, JASPAR2016,
        png
License: GPL-3
MD5sum: 25492d4ecee51dffd203e13888373af2
NeedsCompilation: no

Package: chipseqDB
Version: 1.22.0
Suggests: chipseqDBData, BiocStyle, BiocFileCache, ChIPpeakAnno, Gviz,
        Rsamtools, TxDb.Mmusculus.UCSC.mm10.knownGene, csaw, edgeR,
        knitr, org.Mm.eg.db, rtracklayer, rmarkdown
License: Artistic-2.0
MD5sum: ae0bc632f4e0cfe2c7b76a3c824d85bd
NeedsCompilation: no

Package: csawUsersGuide
Version: 1.14.0
Suggests: knitr, BiocStyle, BiocManager
License: GPL-3
MD5sum: ede645152fb69490900964960beb53b9
NeedsCompilation: no

Package: cytofWorkflow
Version: 1.22.0
Depends: R (>= 3.6.0), BiocStyle, knitr, readxl, CATALYST, diffcyt,
        HDCytoData, uwot, cowplot
Suggests: knitcitations, markdown, rmarkdown
License: Artistic-2.0
MD5sum: 81be0e7ca56f030af131292f7016285e
NeedsCompilation: no

Package: EGSEA123
Version: 1.22.0
Depends: R (>= 3.4.0), EGSEA (>= 1.5.2), limma (>= 3.49.2), edgeR,
        illuminaio
Suggests: knitr, rmarkdown, BiocStyle
License: Artistic-2.0
MD5sum: 16d3d11114edfe55bd7108061fb92378
NeedsCompilation: no

Package: ExpHunterSuite
Version: 1.6.2
Depends: R (>= 4.1.0)
Imports: ReactomePA, limma, edgeR, NOISeq, biomaRt, topGO, diffcoexp,
        DT, ggplot2, stringr, WGCNA, dplyr, AnnotationDbi,
        BiocGenerics, enrichplot, rmarkdown, stats, Biobase, DESeq2,
        ROCR, data.table, knitr, magrittr, SummarizedExperiment,
        miRBaseConverter, grDevices, graphics, utils, BiocParallel,
        MKinfer, matrixStats, rlang, plyr, tidyr, GO.db, Matrix,
        fastcluster, DOSE, heatmaply, EnhancedVolcano, ggrepel,
        clusterProfiler
Suggests: optparse, PerformanceAnalytics, naivebayes, reshape2, TCC,
        org.Hs.eg.db, org.Mm.eg.db, testthat (>= 3.0.0)
License: MIT + file LICENSE
MD5sum: 721af1b3ed2f320b73cbf34952ff72da
NeedsCompilation: no

Package: ExpressionNormalizationWorkflow
Version: 1.24.0
Imports: Biobase (>= 2.24.0), limma (>= 3.20.9), lme4 (>= 1.1.7),
        matrixStats (>= 0.10.3), pvca (>= 1.4.0), snm (>= 1.12.0), sva
        (>= 3.10.0), vsn (>= 3.32.0)
Suggests: knitr, BiocStyle
License: GPL (>= 3)
MD5sum: 4274a0e6169747268856385871859657
NeedsCompilation: no

Package: fluentGenomics
Version: 1.10.0
Depends: R (>= 4.0)
Imports: plyranges (>= 1.7.7), dplyr, SummarizedExperiment, readr,
        stats, utils
Suggests: knitr, rmarkdown, bookdown, rappdirs, BiocFileCache, DESeq2,
        limma, ggplot2, tidyr, tximeta (>= 1.4.2), macrophage (>=
        1.2.0),
License: MIT + file LICENSE
MD5sum: b595d6c8988586e6b496b0b7dfb0e3ef
NeedsCompilation: no

Package: generegulation
Version: 1.22.0
Depends: R (>= 3.3.0), BSgenome.Scerevisiae.UCSC.sacCer3, Biostrings,
        GenomicFeatures, MotifDb, S4Vectors,
        TxDb.Scerevisiae.UCSC.sacCer3.sgdGene, motifStack,
        org.Sc.sgd.db, seqLogo
Suggests: knitr, rmarkdown, BiocStyle
License: Artistic-2.0
MD5sum: 6bf44735650aa29086e4ada3876a4fea
NeedsCompilation: no

Package: GeoMxWorkflows
Version: 1.4.0
Depends: R (>= 4.0), NanoStringNCTools, GeomxTools
Imports: Biobase, S4Vectors, rjson, readxl, EnvStats, dplyr, reshape2,
        methods, utils, stats, data.table, outliers, BiocGenerics,
        ggplot2, ggrepel, ggforce, cowplot, scales, umap, Rtsne,
        pheatmap, BiocStyle
Suggests: rmarkdown, knitr
License: MIT
MD5sum: 906e3368b8d825e869157765e597b706
NeedsCompilation: no

Package: highthroughputassays
Version: 1.22.0
Depends: R (>= 3.3.0), flowCore, flowStats, flowWorkspace
Suggests: knitr, rmarkdown, BiocStyle
License: Artistic-2.0
MD5sum: 3594d54f84a66c3934a82050f4442f9d
NeedsCompilation: no

Package: liftOver
Version: 1.22.0
Depends: R (>= 3.3.0), gwascat, GenomicRanges, rtracklayer,
        Homo.sapiens, BiocGenerics
Suggests: knitr, rmarkdown, BiocStyle
License: Artistic-2.0
MD5sum: d7c44927df0cba61592dc8658cfaf970
NeedsCompilation: no

Package: methylationArrayAnalysis
Version: 1.22.0
Depends: R (>= 3.3.0), knitr, rmarkdown, BiocStyle, limma, minfi,
        IlluminaHumanMethylation450kanno.ilmn12.hg19,
        IlluminaHumanMethylation450kmanifest, RColorBrewer, missMethyl,
        matrixStats, minfiData, Gviz, DMRcate, stringr,
        FlowSorted.Blood.450k
License: Artistic-2.0
MD5sum: 2aa1b7aee39fcf2ba54d6d361d7f3c65
NeedsCompilation: no

Package: recountWorkflow
Version: 1.22.0
Depends: R (>= 3.6.0)
Imports: recount, GenomicRanges, limma, edgeR, DESeq2, regionReport,
        clusterProfiler, org.Hs.eg.db, gplots, derfinder, GenomicState,
        bumphunter, derfinderPlot
Suggests: BiocStyle, BiocWorkflowTools, knitr, sessioninfo, rmarkdown
License: Artistic-2.0
MD5sum: 64ccc53dde430bd201d995c08d2b04f1
NeedsCompilation: no

Package: RNAseq123
Version: 1.22.0
Depends: R (>= 3.3.0), Glimma (>= 1.1.9), limma, edgeR, gplots,
        RColorBrewer, Mus.musculus, R.utils, TeachingDemos, statmod,
        BiocWorkflowTools
Suggests: knitr, rmarkdown, BiocStyle
License: Artistic-2.0
MD5sum: 15074bf786a2e73bce5a1b0a850bc688
NeedsCompilation: no

Package: rnaseqDTU
Version: 1.18.0
Depends: R (>= 3.5.0), DRIMSeq, DEXSeq, stageR, DESeq2, edgeR, rafalib,
        devtools
Suggests: knitr, rmarkdown
License: Artistic-2.0
MD5sum: 0e675ba4d5d2eda5c8c0079c5c7b979b
NeedsCompilation: no

Package: rnaseqGene
Version: 1.22.0
Depends: R (>= 3.3.0), BiocStyle, airway (>= 1.5.3), tximeta, magrittr,
        DESeq2, apeglm, vsn, dplyr, ggplot2, hexbin, pheatmap,
        RColorBrewer, PoiClaClu, glmpca, ggbeeswarm, genefilter,
        AnnotationDbi, org.Hs.eg.db, ReportingTools, Gviz, sva, RUVSeq,
        fission
Suggests: knitr, rmarkdown
License: Artistic-2.0
MD5sum: 0e0658d1513268641db61a69e2f40aef
NeedsCompilation: no

Package: RnaSeqGeneEdgeRQL
Version: 1.22.0
Depends: R (>= 3.3.0), edgeR, gplots, org.Mm.eg.db, GO.db, BiocStyle
Suggests: knitr, knitcitations, rmarkdown
License: Artistic-2.0
MD5sum: 3dd452056066376496cfdecd092663ff
NeedsCompilation: no

Package: sequencing
Version: 1.22.0
Depends: R (>= 3.3.0), GenomicRanges, GenomicAlignments, Biostrings,
        Rsamtools, ShortRead, BiocParallel, rtracklayer,
        VariantAnnotation, AnnotationHub, BSgenome.Hsapiens.UCSC.hg19,
        RNAseqData.HNRNPC.bam.chr14
Suggests: knitr, rmarkdown, BiocStyle
License: Artistic-2.0
MD5sum: d5b959cc133f25dad58725b1eab13179
NeedsCompilation: no

Package: simpleSingleCell
Version: 1.22.0
Imports: utils, methods, knitr, callr, rmarkdown, CodeDepends,
        BiocStyle
Suggests: readxl, R.utils, SingleCellExperiment, scater, scran, limma,
        BiocFileCache, org.Mm.eg.db
License: Artistic-2.0
MD5sum: 65cfc46a061ba4e09be09a8b65e2ab6d
NeedsCompilation: no

Package: SingscoreAMLMutations
Version: 1.14.0
Depends: R (>= 4.1.0)
Imports: dcanr, edgeR, ggplot2, gridExtra, GSEABase, mclust,
        org.Hs.eg.db, plyr, reshape2, rtracklayer, singscore,
        SummarizedExperiment, TCGAbiolinks, BiocFileCache
Suggests: knitr, rmarkdown, BiocStyle, BiocWorkflowTools, spelling
License: Artistic-2.0
MD5sum: f969722541c030269af3053aac360d35
NeedsCompilation: no

Package: variants
Version: 1.22.0
Depends: R (>= 3.3.0), VariantAnnotation, org.Hs.eg.db,
        TxDb.Hsapiens.UCSC.hg19.knownGene, BSgenome.Hsapiens.UCSC.hg19,
        PolyPhen.Hsapiens.dbSNP131
Suggests: knitr, rmarkdown, BiocStyle
License: Artistic-2.0
MD5sum: ade590ca42c953a1581592cc21474c02
NeedsCompilation: no