Package: cRegulome 0.3.2

Mahmoud Ahmed

cRegulome: Obtain and Visualize Regulome-Gene Expression Correlations in Cancer

Builds a 'SQLite' database file of pre-calculated transcription factor/microRNA-gene correlations (co-expression) in cancer from the Cistrome Cancer Liu et al. (2011) <doi:10.1186/gb-2011-12-8-r83> and 'miRCancerdb' databases (in press). Provides custom classes and functions to query, tidy and plot the correlation data.

Authors:Mahmoud Ahmed [aut, cre]

cRegulome_0.3.2.tar.gz
cRegulome_0.3.2.zip(r-4.5)cRegulome_0.3.2.zip(r-4.4)cRegulome_0.3.2.zip(r-4.3)
cRegulome_0.3.2.tgz(r-4.4-any)cRegulome_0.3.2.tgz(r-4.3-any)
cRegulome_0.3.2.tar.gz(r-4.5-noble)cRegulome_0.3.2.tar.gz(r-4.4-noble)
cRegulome_0.3.2.tgz(r-4.4-emscripten)cRegulome_0.3.2.tgz(r-4.3-emscripten)
cRegulome.pdf |cRegulome.html
cRegulome/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/ropensci/cregulome/issues

On CRAN:

cancer-genomicsdatabasedatasciencemicrornapeer-reviewedtcga-datatranscription-factors

17 exports 3 stars 0.61 score 59 dependencies 52 downloads

Last updated 4 years agofrom:b3d7fba6f3a8e688b0b7a90aae20ac1677fdb7f0 (via master)

Exports:cmicroRNAcor_histcor_igraphcor_joycor_plotcor_prepcor_tidycor_upsetcor_venn_diagramcTFget_dbget_mirget_tfstat_collectstat_collect_targetsstat_makestat_make_targets

Dependencies:askpassbitbit64blobcachemclicolorspacecpp11curlDBIfansifarverfastmapformatRfutile.loggerfutile.optionsggplot2ggridgesgluegridExtragtablehttrigraphisobandjsonlitelabelinglambda.rlatticelifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellnlmeopensslpillarpkgconfigplogrplyrR.methodsS3R.ooR.utilsR6RColorBrewerRcpprlangRSQLitescalessystibbleUpSetRutf8vctrsVennDiagramviridisLitewithr

Case Study

Rendered fromcase_study.Rmdusingknitr::rmarkdownon Jun 12 2024.

Last update: 2018-12-21
Started: 2017-08-25

Using cRegulome

Rendered fromusing_cRegulome.Rmdusingknitr::rmarkdownon Jun 12 2024.

Last update: 2018-12-24
Started: 2017-08-11