OncoScore: A tool to identify potentially oncogenic genes

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OncoScore is a tool to measure the association of genes to cancer based on citation frequencies in biomedical literature. The score is evaluated from PubMed literature by dynamically updatable web queries.

Author
Luca De Sano [aut], Carlo Gambacorti Passerini [ctb], Rocco Piazza [ctb], Daniele Ramazzotti [aut, cre], Roberta Spinelli [ctb]
Date of publication
None
Maintainer
Daniele Ramazzotti <daniele.ramazzotti@yahoo.com>
License
GPL-3
Version
1.2.1
URLs

View on Bioconductor

Man pages

compute.frequencies.scores
compute.frequencies.scores
compute.oncoscore
compute.oncoscore
compute.oncoscore.from.region
compute.oncoscore.from.region
compute.oncoscore.timeseries
compute.oncoscore.timeseries
estimate.oncogenes
estimate.oncogenes
genes
A list of genes
get.genes.from.biomart
get.genes.from.biomart
get.list.from.xml
get.list.from.xml
get.pubmed.driver.analysis
get.pubmed.driver.analysis
perform.query
perform.query
perform.query.timeseries
perform.query.timeseries
plot.oncoscore
plot.oncoscore
plot.oncoscore.timeseries
plot.oncoscore.timeseries
query
The result of perform.web.query on genes
query.timepoints
The result of perform.time.series.query on genes and...
timepoints
A list of timepoints
try.scan
try.scan

Files in this package

OncoScore/DESCRIPTION
OncoScore/NAMESPACE
OncoScore/R
OncoScore/R/OncoScore.R
OncoScore/R/data.R
OncoScore/R/plot.R
OncoScore/R/queries.R
OncoScore/R/utils.R
OncoScore/build
OncoScore/build/vignette.rds
OncoScore/data
OncoScore/data/genes.RData
OncoScore/data/genes.txt
OncoScore/data/query.RData
OncoScore/data/query.timepoints.RData
OncoScore/data/timepoints.RData
OncoScore/inst
OncoScore/inst/NEWS.Rd
OncoScore/inst/doc
OncoScore/inst/doc/vignette.R
OncoScore/inst/doc/vignette.Rnw
OncoScore/inst/doc/vignette.pdf
OncoScore/man
OncoScore/man/compute.frequencies.scores.Rd
OncoScore/man/compute.oncoscore.Rd
OncoScore/man/compute.oncoscore.from.region.Rd
OncoScore/man/compute.oncoscore.timeseries.Rd
OncoScore/man/estimate.oncogenes.Rd
OncoScore/man/genes.Rd
OncoScore/man/get.genes.from.biomart.Rd
OncoScore/man/get.list.from.xml.Rd
OncoScore/man/get.pubmed.driver.analysis.Rd
OncoScore/man/perform.query.Rd
OncoScore/man/perform.query.timeseries.Rd
OncoScore/man/plot.oncoscore.Rd
OncoScore/man/plot.oncoscore.timeseries.Rd
OncoScore/man/query.Rd
OncoScore/man/query.timepoints.Rd
OncoScore/man/timepoints.Rd
OncoScore/man/try.scan.Rd
OncoScore/tests
OncoScore/tests/testthat
OncoScore/tests/testthat.R
OncoScore/tests/testthat/test_oncoscore.R
OncoScore/vignettes
OncoScore/vignettes/vignette.Rnw