2023-11-27: new: bcellViper/1.36.0 ; decoupleR/2.6.0 ; dorothea/1.12.0 ; EnvStats/2.8.1 ; fANCOVA/0.6-1 ; locfdr/1.1-8 ; multinichenetr/1.0.3
2023-11-27: updates: glmmTMB/1.1.8 ; TMB/1.9.7
2023-11-23: new: fftw/1.0-7 ; qusage/2.34.0
2023-11-20: new: chromVARmotifs/0.2.0 ; SparseArray/1.2.2
2023-11-20: updates: S4Arrays/1.2.0
2023-11-08: new: GSVA/1.48.3
2023-11-03: updates: CellChat/1.6.1
2023-11-02: updates: reticulate/1.34.0
2023-11-01: new: Matrix.utils/0.9.7
2023-11-01: updates: sp/2.1-1
2023-10-27: new: renv/1.0.3
2023-10-25: new: CodeAndRoll2/2.3.4 ; ggExpress/0.7.4 ; gruffi/0.7.5 ; HGNChelper/0.8.1 ; MarkdownHelpers/0.2.8 ; MarkdownReports/4.5.9 ; ReadWriter/0.3.2 ; Seurat.utils/2.0.0 ; Stringendo/0.3.6 ; tictoc/1.2 ; vioplot/0.4.0
2023-10-24: new: softImpute/1.4-1 ; SpatialExperiment/1.10.0 ; zinbwave/1.22.0
2023-10-19: new: janeaustenr/1.0.0 ; tidytext/0.4.1 ; tokenizers/0.3.0
2023-10-18: downgrades: Azimuth/0.4.6
2023-10-17: new: nichenetr/2.0.4
2023-10-12: new: glmpca/0.2.0 ; scry/1.12.0 ; scSHC/0.1.0
2023-10-05: removed: MASC. Defective NAMESPACE file means import fails
2023-10-04: updates: harmony/1.0.3
2023-10-03: new: babelwhale/1.2.0 ; carrier/0.1.1 ; dynparam/1.0.2 ; dynutils/1.0.11 ; dynwrap/1.2.4 ; lmds/0.1.0 ; SCORPIUS/1.0.9
2023-09-28: new: cellhashR/1.0.3 ; demuxmix/1.2.0 ; DropletQC/0.0.0.9000 ; STACAS/2.1.3 ; tester/0.1.7
2023-09-21: new: CellBench/1.16.0 ; speckle/1.0.0
2023-09-19: new: ChIPQC/1.36.1 ; MASC/0.0.0.9000
2023-09-14: new: ATACseqQC/1.24.0 ; GenomicScores/2.12.0
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quadprog/1.5-8 anytime/0.3.9 ggrastr/1.0.1 quantmod/0.4.22 aod/1.3.2 ggrepel/0.9.3 quantreg/5.95 ape/5.7-1 ggridges/0.5.4 questionr/0.7.8 apeglm/1.22.1 ggsci/3.0.0 qusage/2.34.0 aplot/0.1.10 ggseqlogo/0.1 qvalue/2.32.0 ArchR/1.0.2 ggsignif/0.6.4 qvcalc/1.0.2 argparse/2.2.2 ggtext/0.1.2 R.cache/0.16.0 argparser/0.7.1 ggthemes/4.2.4 R.devices/2.17.1 aricode/1.0.2 ggtree/3.8.0 R.matlab/3.7.0 aroma.light/3.30.0 ggupset/0.3.0 R.methodsS3/1.8.2 arrangements/1.1.9 ggVennDiagram/1.2.2 R.oo/1.25.0 arrow/12.0.0 gh/1.4.0 R.rsp/0.45.0 ash/1.0-15 git2r/0.32.0 R.utils/2.12.2 ashr/2.2-54 gitcreds/0.1.2 R2HTML/2.3.3 askpass/1.1 gld/2.6.6 R4RNA/1.28.0 assertive.base/0.0-9 glmGamPoi/1.12.1 R6/2.5.1 assertive.files/0.0-2 glmmTMB/1.1.8 ragg/1.2.5 assertive.numbers/0.0-2 glmnet/4.1-7 RaggedExperiment/1.24.0 assertive.properties/0.0-5 glmpath/0.98 rainbow/3.7 assertive.types/0.0-3 glmpca/0.2.0 randomcoloR/1.1.0.1 assertthat/0.2.1 GlobalOptions/0.1.2 randomForest/4.7-1.1 ATACseqQC/1.24.0 globals/0.16.2 randomForestSRC/3.2.1 ath1121501.db/3.13.0 globaltest/5.54.0 ranger/0.15.1 ath1121501cdf/2.18.0 glue/1.6.2 RANN/2.6.1 AUC/0.3.2 gmm/1.7 rapiclient/0.1.3 AUCell/1.22.0 gmodels/2.18.1.1 RApiSerialize/0.1.2 aws.s3/0.3.21 gmp/0.7-1 rappdirs/0.3.3 aws.signature/0.6.0 GO.db/3.17.0 rARPACK/0.11-0 Azimuth/0.4.6 goftest/1.2-3 raster/3.6-20 babel/0.3-0 googledrive/2.1.1 RBGL/1.76.0 babelgene/22.9 googlesheets4/1.1.1 rbibutils/2.2.13 babelwhale/1.2.0 googleVis/0.7.1 Rcgmin/2022-4.30 backports/1.4.1 GOSemSim/2.26.0 RCircos/1.2.2 ballgown/2.32.0 goseq/1.52.0 RcisTarget/1.20.0 base64/2.0.1 GOstats/2.66.0 rcmdcheck/1.4.0 base64enc/0.1-3 GOsummaries/2.36.0 RColorBrewer/1.1-3 base64url/1.4 goTools/1.74.0 Rcpp/1.0.10 basilisk/1.12.0 gower/1.0.1 RcppAnnoy/0.0.20 basilisk.utils/1.12.0 GPfit/1.0-8 RcppArmadillo/0.12.4.1.0 batchelor/1.16.0 gplots/3.1.3 RcppEigen/0.3.3.9.3 BatchJobs/1.9 gProfileR/0.7.0 RcppGSL/0.3.13 batchtools/0.9.17 gprofiler2/0.2.1 RcppHNSW/0.4.1 BayesFactor/0.9.12-4.4 graph/1.78.0 RcppML/0.3.7 bayesm/3.1-5 graphite/1.46.0 RcppNumerical/0.5-0 bayesplot/1.10.0 graphlayouts/1.0.0 RcppParallel/5.1.7 BB/2019.10-1 GreyListChIP/1.32.0 RcppProgress/0.4.2 BBmisc/1.13 gridBase/0.4-7 RcppRoll/0.3.0 bbmle/1.0.25 gridExtra/2.3 RcppSpdlog/0.0.12 bcellViper/1.36.0 gridGraphics/0.5-1 RcppTOML/0.2.2 BCRANK/1.62.0 gridtext/0.1.5 RcppZiggurat/0.1.6 bdsmatrix/1.3-6 grImport/0.9-7 RCurl/1.98-1.12 beachmat/2.16.0 grImport2/0.2-0 Rdpack/2.4 beadarray/2.50.0 grr/0.9.5 reactome.db/1.84.0 BeadDataPackR/1.52.0 gruffi/0.7.5 ReactomeGSA/1.14.0 beanplot/1.3.1 GSA/1.03.2 ReactomePA/1.44.0 bedr/1.0.7 GSEABase/1.62.0 readr/2.1.4 beeswarm/0.4.0 gsl/2.1-8 ReadWriter/0.3.2 betareg/3.1-4 gson/0.1.0 readxl/1.4.2 BH/1.81.0-1 gss/2.2-4 recipes/1.0.6 BiasedUrn/2.0.9 gsubfn/0.7 RefManageR/1.4.0 bibtex/0.5.1 GSVA/1.48.3 regioneR/1.32.0 biglm/0.9-2.1 gtable/0.3.3 registry/0.5-1 bigmemory.sri/0.1.6 gtools/3.9.4 relations/0.6-13 bindr/0.1.1 gtrellis/1.32.0 rem/1.3.1 bindrcpp/0.2.2 Gviz/1.44.0 remaCor/0.0.11 binom/1.1-1.1 h2o/3.40.0.1 rematch/1.0.1 Biobase/2.60.0 hardhat/1.3.0 rematch2/2.1.2 BiocBaseUtils/1.2.0 harmony/1.0.3 remotes/2.4.2 BiocFileCache/2.8.0 haven/2.5.2 renv/1.0.3 BiocGenerics/0.46.0 HDF5Array/1.28.1 repr/1.1.6 BiocIO/1.10.0 hdf5r/1.3.8 reprex/2.0.2 BiocManager/1.30.21 HDO.db/0.99.1 reshape/0.8.9 BiocNeighbors/1.18.0 hdrcde/3.4 reshape2/1.4.4 BiocParallel/1.34.2 heatmap3/1.1.9 ResidualMatrix/1.10.0 BiocSingular/1.16.0 heatmaply/1.4.2 restfulr/0.0.15 BiocStyle/2.28.1 here/1.0.1 reticulate/1.34.0 BiocVersion/3.17.1 hexbin/1.28.3 rex/1.2.1 biocViews/1.68.1 HGNChelper/0.8.1 Rfast/2.0.7 biomaRt/2.56.1 hgu133bcdf/2.18.0 rfigshare/0.3.8 Biostrings/2.68.1 hgu133bprobe/2.18.0 rGADEM/2.48.0 biovizBase/1.48.0 hgu95acdf/2.18.0 rgdal/1.6-6 BiSeq/1.40.0 hgu95aprobe/2.18.0 rgeos/0.6-2 bit/4.0.5 hgu95av2/2.2.0 rgl/1.1.3 bit64/4.0.5 HiCcompare/1.22.1 Rgraphviz/2.44.0 bitops/1.0-7 HiddenMarkov/1.8-13 rhandsontable/0.3.8 blme/1.0-5 highcharter/0.9.4 rhdf5/2.44.0 blob/1.2.4 highlight/0.5.1 rhdf5filters/1.12.1 blockmodeling/1.1.4 highr/0.10 Rhdf5lib/1.22.0 bluster/1.10.0 Hmisc/5.1-0 RhpcBLASctl/0.23-42 BMA/3.18.17 hms/1.1.3 Rhtslib/2.2.0 bnbc/1.22.0 Homo.sapiens/1.3.1 RInside/0.2.18 bookdown/0.34 hopach/2.60.0 rintrojs/0.3.2 boot/1.3-28.1 HSMMSingleCell/1.20.0 rio/0.5.29 BPCells/0.1.0 htmlTable/2.4.1 riverplot/0.10 BradleyTerry2/1.1-2 htmltools/0.5.5 rJava/1.0-6 brew/1.0-8 htmlwidgets/1.6.2 rjson/0.2.21 brglm/0.7.2 HTqPCR/1.54.0 RJSONIO/1.3-1.8 bridgesampling/1.1-2 httpcode/0.3.0 rlang/1.1.1 brio/1.1.3 httpuv/1.6.11 rle/0.9.2 brms/2.19.0 httr/1.4.6 rlecuyer/0.3-7 Brobdingnag/1.2-9 httr2/0.2.3 rliger/1.0.0 broom/1.0.4 HuExExonProbesetLocationHg19/0.0.3 rlist/0.4.6.2 BSgenome/1.68.0 hwriter/1.3.2.1 RMariaDB/1.2.2 BSgenome.Drerio.UCSC.danRer10/1.4.2 hypergeo/1.2-13 rmarkdown/2.22 BSgenome.Drerio.UCSC.danRer11/1.4.2 hypergraph/1.72.0 rmdformats/1.0.4 BSgenome.Drerio.UCSC.danRer7/1.4.0 ica/1.0-3 rmeta/3.0 BSgenome.Ggallus.UCSC.galGal5/1.4.2 IDPmisc/1.1.20 Rmisc/1.5.1 BSgenome.Hsapiens.UCSC.hg18/1.3.1000 idr/1.3 Rmpfr/0.9-2 BSgenome.Hsapiens.UCSC.hg19/1.4.3 ids/1.0.1 RMTstat/0.3.1 BSgenome.Hsapiens.UCSC.hg38/1.4.5 igraph/1.5.0 rmutil/1.1.10 BSgenome.Hsapiens.UCSC.hg38.masked/1.4.5 illuminaHumanv1.db/1.26.0 RMySQL/0.10.25 BSgenome.Mmusculus.UCSC.mm10/1.4.3 illuminaHumanv3.db/1.26.0 rncl/0.8.7 BSgenome.Mmusculus.UCSC.mm39/1.4.3 illuminaHumanv4.db/1.26.0 RNeXML/2.4.11 BSgenome.Mmusculus.UCSC.mm9/1.4.0 illuminaio/0.42.0 rngtools/1.5.2 bslib/0.5.0 immunarch/0.9.0 robCompositions/2.3.1 bumphunter/1.42.0 impute/1.74.1 robust/0.7-1 BUSpaRse/1.14.1 ineq/0.2-13 robustbase/0.95-1 BWStest/0.2.2 infinityFlow/1.10.0 robustHD/0.7.4 ca/0.71.1 inflection/1.3.6 ROCR/1.0-11 cachem/1.0.8 influenceR/0.1.0.2 Rook/1.2 Cairo/1.6-0 infotheo/1.2.0.1 rootSolve/1.8.2.3 calibrate/1.7.7 ini/0.3.1 roptim/0.1.6 callr/3.7.3 inline/0.3.19 roxygen2/7.2.3 car/3.1-2 insight/0.19.1 rpart/4.1.19 carData/3.0-5 InteractionSet/1.28.0 rprojroot/2.0.3 caret/6.0-94 interactiveDisplayBase/1.38.0 RProtoBufLib/2.12.0 carrier/0.1.1 intergraph/2.0-2 rrcov/1.7-3 CATALYST/1.24.0 interp/1.1-4 rsample/1.1.1 Category/2.66.0 intervals/0.15.3 Rsamtools/2.16.0 caTools/1.18.2 inum/1.0-5 RSclient/0.7-9 cBioPortalData/2.12.0 invgamma/1.1 rsconnect/0.8.29 cccd/1.6 ipred/0.9-14 Rserve/1.8-11 ccRemover/1.0.4 IRanges/2.34.1 Rsolnp/1.16 celda/1.16.1 IRdisplay/1.1 rsparse/0.5.1 CellBench/1.16.0 IRkernel/1.3.2 RSpectra/0.16-1 CellChat/1.6.1 irlba/2.3.5.1 RSQLite/2.3.1 cellhashR/1.0.3 iSEE/2.12.0 rstan/2.21.8 cellranger/1.1.0 Iso/0.0-18.1 rstanarm/2.21.4 Cepo/1.6.0 isoband/0.2.7 rstantools/2.3.1 CGHbase/1.60.0 IsoformSwitchAnalyzeR/1.21.0 rstatix/0.7.2 CGHregions/1.58.0 isotone/1.1-1 rstudioapi/0.14 checkmate/2.2.0 ISwR/2.0-8 Rsubread/2.14.1 chemometrics/1.4.2 iterators/1.0.14 rsvd/1.0.5 chickencdf/2.18.0 iterpc/0.4.2 rsvg/2.4.0 chipenrich.data/2.24.0 itertools/0.1-3 RTCGA/1.30.0 ChIPpeakAnno/3.34.1 jackstraw/1.3.8 RTCGAToolbox/2.30.0 ChIPQC/1.36.1 janeaustenr/1.0.0 rtracklayer/1.60.0 ChIPseeker/1.36.0 janitor/2.2.0 Rtsne/0.16 chipseq/1.50.0 JASPAR2014/1.36.0 Rttf2pt1/1.3.12 chromVAR/1.22.1 JASPAR2020/0.99.10 rugarch/1.4-9 chromVARmotifs/0.2.0 jcolors/0.0.5 RUnit/0.4.32 chron/2.3-61 jpeg/0.1-10 ruv/0.9.7.1 circlize/0.4.15 jquerylib/0.1.4 rvcheck/0.2.1 CircStats/0.2-6 jsonlite/1.8.5 RVenn/1.1.0 class/7.3-22 KEGGgraph/1.60.0 rversions/2.1.2 classInt/0.4-9 KEGGREST/1.40.0 rvest/1.0.3 cli/3.6.1 keras/2.11.1 rvg/0.3.3 clipr/0.8.0 kernlab/0.9-32 Rvmmin/2018-4.17.1 clisymbols/1.2.0 KernSmooth/2.23-21 Rwave/2.6-5 clock/0.7.0 klaR/1.7-2 rzmq/0.9.9 clue/0.3-64 km.ci/0.5-6 s2/1.1.4 cluster/2.1.4 KMsurv/0.1-5 S4Arrays/1.2.0 clusterGeneration/1.3.7 knitr/1.43 S4Vectors/0.38.1 clusterProfiler/4.8.1 knn.covertree/1.0 sampleSelection/1.2-12 ClusterR/1.3.1 kohonen/3.0.11 samr/3.0 clustifyr/1.12.0 koRpus/0.13-8 sandwich/3.0-2 clustree/0.5.0 ks/1.14.0 sass/0.4.6 cmdfun/1.0.2 kSamples/1.2-9 SC3/1.28.1 cmprsk/2.2-11 labeling/0.4.2 ScaledMatrix/1.8.1 cn.mops/1.46.0 labelled/2.11.0 scales/1.2.1 CNEr/1.36.0 laeken/0.5.2 scater/1.28.0 coda/0.19-4 Lahman/11.0-0 scattermore/1.2 CodeAndRoll2/2.3.4 lambda.r/1.2.4 scatterpie/0.1.9 codetools/0.2-19 languageserver/0.3.15 scatterplot3d/0.3-44 coin/1.4-2 LaplacesDemon/16.1.6 scClassify/1.12.0 collapse/1.9.5 lars/1.3 sccore/1.0.3 collections/0.3.7 later/1.3.1 scDblFinder/1.14.0 coloc/5.2.2 lattice/0.21-8 scde/2.28.2 colorRamps/2.3.1 latticeExtra/0.6-30 scistreer/1.1.0 colorspace/2.1-0 lava/1.7.2.1 SciViews/0.9-13.1 colourpicker/1.2.0 lazyeval/0.2.2 SCORPIUS/1.0.9 combinat/0.0-8 lda/1.4.2 scran/1.28.1 commonmark/1.9.0 leaps/3.1 scRepertoire/1.7.0 ComplexHeatmap/2.16.0 LearnBayes/2.15.1 scrime/1.3.5 compositions/2.0-6 leiden/0.4.3 scRNAseq/2.14.0 condiments/1.8.0 leidenAlg/1.0.5 scry/1.12.0 config/0.3.1 leidenbase/0.1.18 scSHC/0.1.0 conflicted/1.2.0 lfe/2.9-0 sctransform/0.3.5 conos/1.5.0 lgr/0.4.4 scuttle/1.10.1 conquer/1.3.3 lhs/1.1.6 segmented/1.6-4 ConsensusClusterPlus/1.64.0 libcoin/1.0-9 selectr/0.4-2 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