Package: GSSTDA 1.0.0

GSSTDA: Progression Analysis of Disease with Survival using Topological Data Analysis

Mapper-based survival analysis with transcriptomics data is designed to carry out. Mapper-based survival analysis is a modification of Progression Analysis of Disease (PAD) where survival data is taken into account in the filtering function. More details in: J. Fores-Martos, B. Suay-Garcia, R. Bosch-Romeu, M.C. Sanfeliu-Alonso, A. Falco, J. Climent, "Progression Analysis of Disease with Survival (PAD-S) by SurvMap identifies different prognostic subgroups of breast cancer in a large combined set of transcriptomics and methylation studies" <doi:10.1101/2022.09.08.507080>.

Authors:Miriam Esteve [aut, cre], Raquel Bosch [aut], Jaume Forés [aut], Joan Climent [aut], Antonio Falco [aut]

GSSTDA_1.0.0.tar.gz
GSSTDA_1.0.0.zip(r-4.5)GSSTDA_1.0.0.zip(r-4.4)GSSTDA_1.0.0.zip(r-4.3)
GSSTDA_1.0.0.tgz(r-4.4-any)GSSTDA_1.0.0.tgz(r-4.3-any)
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GSSTDA.pdf |GSSTDA.html✨
GSSTDA/json (API)

Peer review:

Bug tracker:https://github.com/miriamesteve/gsstda/issues

On CRAN:

15 exports 2 stars 1.68 score 118 dependencies 7 scripts 815 downloads

Last updated 2 months agofrom:fddde620fd. Checks:OK: 1 NOTE: 6. Indexed: yes.

Exports:denoise_rectangular_matrixdsgaflatten_normal_tissgene_selectiongene_selection_generate_disease_componentgsstdalp_norm_k_powers_survmapperone_D_Mapperoptimal_SVHT_coef_gamma_knownoptimal_SVHT_coef_gamma_unknownplot_dsgaplot_mapperresults_dsga

Dependencies:askpassbase64encBiocGenericsbrewbriobslibcachemcallrcirclizeclicliprclueclustercodetoolscolorspacecommonmarkComplexHeatmapcpp11crayoncredentialscurldescdevtoolsdiffobjdigestdoParalleldownlitellipsisevaluatefansifastmapfontawesomeforeachfsgertGetoptLongghgitcredsGlobalOptionsgluehighrhtmltoolshtmlwidgetshttpuvhttr2iniIRangesiteratorsjquerylibjsonliteknitrlaterlatticelifecyclemagrittrMatrixmatrixStatsmemoisemimeminiUIopensslpillarpkgbuildpkgconfigpkgdownpkgloadpngpraiseprettyunitsprocessxprofvispromisespspurrrR6raggrappdirsrcmdcheckRColorBrewerRcpprematch2remotesrjsonrlangrmarkdownroxygen2rprojrootrstudioapirversionsS4Vectorssasssessioninfoshapeshinysourcetoolsstringistringrsurvivalsyssystemfontstestthattextshapingtibbletinytexurlcheckerusethisutf8vctrsvisNetworkwaldowhiskerwithrxfunxml2xopenxtableyamlzip