Introduction | Package installation | Overview | Subtype identification | Subtype characterization | Session info | References
Package: DeSousa2013 1.49.0
Xin Wang
DeSousa2013: Poor prognosis colon cancer is defined by a molecularly distinct subtype and precursor lesion
This package reproduces the main pipeline to analyze the AMC-AJCCII-90 microarray data set in De Sousa et al. accepted by Nature Medicine in 2013.
Authors:
DeSousa2013_1.49.0.tar.gz
DeSousa2013_1.49.0.tar.gz(r-4.7-any)DeSousa2013_1.49.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
DeSousa2013/json (API)
| # Install 'DeSousa2013' in R: |
| install.packages('DeSousa2013', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- AMC_CRC_clinical - Data used in the package DeSousa2013
- AMC_sample_head - Data used in the package DeSousa2013
- cents - Data used in the package DeSousa2013
- clu.pred - Data used in the package DeSousa2013
- clus - Data used in the package DeSousa2013
- clus.f - Data used in the package DeSousa2013
- data4surv - Data used in the package DeSousa2013
- diffGenes - Data used in the package DeSousa2013
- diffGenes.f - Data used in the package DeSousa2013
- err - Data used in the package DeSousa2013
- gapsmat - Data used in the package DeSousa2013
- gapsSE - Data used in the package DeSousa2013
- gclu.f - Data used in the package DeSousa2013
- ge.all - Data used in the package DeSousa2013
- nam.ord - Data used in the package DeSousa2013
- pam.rslt - Data used in the package DeSousa2013
- pred - Data used in the package DeSousa2013
- sdat - Data used in the package DeSousa2013
- sdat.f - Data used in the package DeSousa2013
- sdat.sig - Data used in the package DeSousa2013
- selPbs - Data used in the package DeSousa2013
- signature - Data used in the package DeSousa2013
- silh - Data used in the package DeSousa2013
- surv - Data used in the package DeSousa2013
- survstats - Data used in the package DeSousa2013
- thresh - Data used in the package DeSousa2013
- uniGenes - Data used in the package DeSousa2013
On BioConductor:DeSousa2013-1.49.0(data/experiment 3.24)DeSousa2013-1.48.0(data/experiment 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
cancerdatacoloncancerdatamicroarraydatadatapkg
Last updated from:f62b05530b. Checks:1 ERROR, 2 NOTE, 1 OK. Indexed: yes.
This is a data package. Data packages may be large and do not get checked across all platforms.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 254 | ||
| linux-devel | NOTE | 388 | ||
| source / vignettes | OK | 404 | ||
| linux-release | NOTE | 339 |
Exports:buildClassifiercompGapStatsconClustCRCPipeLinefigClassifyfigGAPfigKMfigPAMCVfigSilhfilterDiffGenesfilterSamplesfindDiffGenesgeneExpPrepamClassifypbs2unigenesprogAMCselTopVarGenes
Dependencies:abindaffxparseraffyaffyioALLannotateAnnotationDbiaskpassbase64encBHBiobaseBiocBaseUtilsBiocGenericsBiocManagerBiocParallelBiostringsbitbit64bitopsblobbslibcachemcaToolscliclustercodetoolsConsensusClusterPluscpp11crayoncurlDBIDelayedArraydigestedgeRevaluatefastmapfffontawesomeforeachformatRfrmafrmaToolsfsfutile.loggerfutile.optionsgenefiltergenericsGenomicRangesgluegplotsgtoolshgu133plus2.dbhgu133plus2frmavecshighrhtmltoolshtmlwidgetshttrIRangesiteratorsjquerylibjsonliteKEGGRESTKernSmoothknitrlambda.rlatticelifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemulttestnlmeoligooligoClassesopensslorg.Hs.eg.dbpamrpkgconfigpngpreprocessCoreR6rappdirsrglrlangrmarkdownROCRRSQLiteS4ArraysS4VectorssassscrimeSeqinfosiggenessnowSparseArraystatmodSummarizedExperimentsurvivalsvasystinytexvctrsxfunXMLxtableXVectoryaml
