Package: survtype 1.23.0
Dongmin Jung
survtype: Subtype Identification with Survival Data
Subtypes are defined as groups of samples that have distinct molecular and clinical features. Genomic data can be analyzed for discovering patient subtypes, associated with clinical data, especially for survival information. This package is aimed to identify subtypes that are both clinically relevant and biologically meaningful.
Authors:
survtype_1.23.0.tar.gz
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survtype.pdf |survtype.html✨
survtype/json (API)
NEWS
| # Install 'survtype' in R: |
| install.packages('survtype', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:survtype-1.23.0(bioc 3.21)survtype-1.22.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
softwarestatisticalmethodgeneexpressionsurvivalclusteringsequencingcoverage
Last updated 23 days agofrom:150b74acd7. Checks:OK: 4 WARNING: 3. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 31 2024 |
| R-4.5-win | WARNING | Oct 31 2024 |
| R-4.5-linux | OK | Oct 31 2024 |
| R-4.4-win | WARNING | Oct 31 2024 |
| R-4.4-mac | OK | Oct 31 2024 |
| R-4.3-win | WARNING | Oct 31 2024 |
| R-4.3-mac | OK | Oct 31 2024 |
Exports:Exprs.survtypegene.clustMAF.survgroupmaf2matrixplotplot.survtypequantile_normalizationSingle.survgroupSurv.survtype
Dependencies:abindaskpassbackportsBiobaseBiocGenericsBMAbootbroomcarcarDatacliclustvarselcodetoolscolorspacecommonmarkcorrplotcowplotcpp11crayoncurldata.tableDelayedArrayDEoptimRDerivdoBydplyrevaluateexactRankTestsfansifarverforeachFormulagenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2ggpubrggrepelggsciggsignifggtextgluegridExtragridtextgtablehighrhttrinlineIRangesisobanditeratorsjpegjsonlitekm.ciKMsurvknitrlabelinglatticeleapslifecyclelme4magrittrmarkdownMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmaxstatmclustmgcvmicrobenchmarkmimeminqamodelrmunsellmvtnormnlmenloptrnnetnumDerivopensslpbkrtestpcaPPpheatmappillarpkgconfigpngpolynompurrrquantregR6RColorBrewerRcppRcppEigenrlangrobustbaserrcovrstatixS4ArraysS4VectorsscalesSparseArraySparseMstringistringrSummarizedExperimentsurvivalsurvminersurvMiscsystibbletidyrtidyselectUCSC.utilsutf8vctrsviridisLitewithrxfunxml2xtableXVectoryamlzlibbioczoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Sample subtype identification via survival information and gene expression data | Exprs.survtype |
| Plots of the heatmap for each cluster of expression data | gene.clust |
| Patient group identification via survival data and mutation annotation information | MAF.survgroup |
| Convert a MAF file to a mutation matrix | maf2matrix |
| Plot of survival curves of sample subtypes | plot plot.survtype |
| Normalize a gene expression profile | quantile_normalization |
| Patient group identification via survival information and expression of a single gene | Single.survgroup |
| Sample subtype identification via survival information | Surv.survtype |
