Package: CTexploreR 1.8.0

Axelle Loriot

CTexploreR: Explores Cancer Testis Genes

The CTexploreR package re-defines the list of Cancer Testis/Germline (CT) genes. It is based on publicly available RNAseq databases (GTEx, CCLE and TCGA) and summarises CT genes' main characteristics. Several visualisation functions allow to explore their expression in different types of tissues and cancer cells, or to inspect the methylation status of their promoters in normal tissues.

Authors:Axelle Loriot [aut, cre], Julie Devis [aut], Anna Diacofotaki [ctb], Charles De Smet [ths], Laurent Gatto [aut, ths]

CTexploreR_1.8.0.tar.gz
CTexploreR_1.8.0.zip(r-4.7)CTexploreR_1.8.0.zip(r-4.6)CTexploreR_1.8.0.zip(r-4.5)
CTexploreR_1.8.0.tgz(r-4.6-any)CTexploreR_1.8.0.tgz(r-4.5-any)
CTexploreR_1.8.0.tar.gz(r-4.7-any)CTexploreR_1.8.0.tar.gz(r-4.6-any)
CTexploreR_1.8.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
CTexploreR/json (API)
NEWS

# Install 'CTexploreR' in R:
install.packages('CTexploreR', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/uclouvain-cbio/ctexplorer/issues

On BioConductor:CTexploreR-1.9.0(bioc 3.24)CTexploreR-1.8.0(bioc 3.23)

transcriptomicsepigeneticsdifferentialexpressiongeneexpressiondnamethylationexperimenthubsoftwaredataimportbioconductor

4.65 score 7 scripts 266 downloads 20 exports 94 dependencies

Last updated from:17f6c3d448 (on RELEASE_3_23). Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksERROR198
linux-devel-x86_64NOTE650
source / vignettesOK1183
linux-release-x86_64NOTE580
macos-release-arm64NOTE1166
macos-oldrel-arm64NOTE520
windows-develNOTE640
windows-releaseNOTE495
windows-oldrelNOTE543
wasm-releaseOK152

Exports:all_genesCCLE_expressionCT_correlated_genesCT_genesDAC_inductionembryo_expressionembryos_mean_methylationfetal_germcells_expressionfetal_germcells_mean_methylationGTEX_expressionhESC_expressionhESC_mean_methylationHPA_cell_type_expressionnormal_tissue_expression_multimappingnormal_tissues_mean_methylationnormal_tissues_methylationoocytes_expressionTCGA_expressionTCGA_methylation_expression_correlationtestis_expression

Dependencies:abindAnnotationDbiAnnotationHubaskpassBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocManagerBiocVersionBiostringsbitbit64blobcachemcirclizecliclueclustercodetoolscolorspaceComplexHeatmapcpp11crayonCTdatacurlDBIdbplyrDelayedArraydigestdoParalleldplyrExperimentHubfarverfastmapfilelockforeachgenericsGenomicRangesGetoptLongggplot2ggrepelGlobalOptionsgluegtablehttrhttr2IRangesisobanditeratorsjsonliteKEGGRESTlabelinglatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigpngpurrrR6rappdirsRColorBrewerRcpprjsonrlangRSQLiteS4ArraysS4VectorsS7scalesSeqinfoshapeSingleCellExperimentSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselectutf8vctrsviridisLitewithrXVectoryaml

Cancer Testis explorer

Julie Devis, Laurent Gatto, Axelle Loriot

Rendered fromCTexploreR.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2024-10-28
Started: 2023-02-24