Package: GB5mcPred 0.1.0

GB5mcPred: Gradient Boosting Algorithm for Predicting Methylation States

DNA methylation of 5-methylcytosine (5mC) is the result of a multi-step, enzyme-dependent process. Predicting these sites in-vitro is laborious, time consuming as well as costly. This ' Gb5mC-Pred ' package is an in-silico pipeline for predicting DNA sequences containing the 5mC sites. It uses a machine learning approach which uses Stochastic Gradient Boosting approach for prediction of the sequences with 5mC sites. This package has been developed by using the concept of Navarez and Roxas (2022) <doi:10.1109/TCBB.2021.3082184>.

Authors:Dipro Sinha [aut, cre], Sunil Archak [aut], Dwijesh Chandra Mishra [aut], Tanwy Dasmandal [aut], Md Yeasin [aut]

GB5mcPred_0.1.0.tar.gz
GB5mcPred_0.1.0.zip(r-4.5)GB5mcPred_0.1.0.zip(r-4.4)GB5mcPred_0.1.0.zip(r-4.3)
GB5mcPred_0.1.0.tgz(r-4.4-any)GB5mcPred_0.1.0.tgz(r-4.3-any)
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GB5mcPred.pdf |GB5mcPred.html
GB5mcPred/json (API)

# Install 'GB5mcPred' in R:
install.packages('GB5mcPred', repos = c('https://diprosinha.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.00 score 3 scripts 141 downloads 1 exports 212 dependencies

Last updated 1 years agofrom:0cf9b9499e. Checks:OK: 6 WARNING: 1. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 03 2024
R-4.5-winOKNov 03 2024
R-4.5-linuxWARNINGNov 03 2024
R-4.4-winOKNov 03 2024
R-4.4-macOKNov 03 2024
R-4.3-winOKNov 03 2024
R-4.3-macOKNov 03 2024

Exports:Pred5mc

Dependencies:ade4askpassbackportsbase64encBiocGenericsBiostringsbitbit64blobbrewbriobroombslibcachemcallrcaretcellrangerclassclicliprclockcodetoolscoincolorspacecommonmarkconflictedcpp11crayoncredentialscurldata.tableDBIdbplyrdescdevtoolsdiagramdiffobjdigestdoParalleldownlitdplyrdtplyre1071ellipsisentropyevaluatefansifarverfastmapfontawesomeforcatsforeachfsftrCOOLfuturefuture.applygarglegbmgenericsGenomeInfoDbGenomeInfoDbDatagertggplot2ghgitcredsglobalsgluegoogledrivegooglesheets4gowergtablehardhathavenhighrhmshtmltoolshtmlwidgetshttpuvhttrhttr2idsiniipredIRangesisobanditeratorsjquerylibjsonliteKernSmoothknitrlabelinglaterlatticelavalibcoinlifecyclelistenvlubridatemagrittrMASSMatrixmatrixStatsmemoisemgcvmimeminiUIModelMetricsmodelrmodeltoolsmultcompmunsellmvtnormnlmennetnumDerivopensslparallellypartypillarpixmappkgbuildpkgconfigpkgdownpkgloadplyrpraiseprettyunitspROCprocessxprodlimprofvisprogressprogressrpromisesproxypspurrrR6raggrandomForestrappdirsrcmdcheckRColorBrewerRcppRcppArmadilloreadrreadxlrecipesrematchrematch2remotesreprexreshape2rlangrmarkdownroxygen2rpartrprojrootrstudioapirversionsrvestS4VectorssandwichsassscalessegmentedselectrseqinrsessioninfoshapeshinysourcetoolsspsplitstackshapeSQUAREMstringistringrstrucchangesurvivalsyssystemfontstestthattextshapingTH.datatibbletidyrtidyselecttidyversetimechangetimeDatetinytextzdbUCSC.utilsurlcheckerusethisutf8uuidvctrsviridisLitevroomwaldowhiskerwithrxfunxml2xopenxtableXVectoryamlzipzlibbioczoo