Package: UCSCXenaShiny 2.2.0
UCSCXenaShiny: Interactive Analysis of UCSC Xena Data
Provides functions and a Shiny application for downloading, analyzing and visualizing datasets from UCSC Xena (<http://xena.ucsc.edu/>), which is a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.
Authors:
UCSCXenaShiny_2.2.0.tar.gz
UCSCXenaShiny_2.2.0.zip(r-4.5)UCSCXenaShiny_2.2.0.zip(r-4.4)UCSCXenaShiny_2.2.0.zip(r-4.3)
UCSCXenaShiny_2.2.0.tgz(r-4.4-any)UCSCXenaShiny_2.2.0.tgz(r-4.3-any)
UCSCXenaShiny_2.2.0.tar.gz(r-4.5-noble)UCSCXenaShiny_2.2.0.tar.gz(r-4.4-noble)
UCSCXenaShiny_2.2.0.tgz(r-4.4-emscripten)UCSCXenaShiny_2.2.0.tgz(r-4.3-emscripten)
UCSCXenaShiny.pdf |UCSCXenaShiny.html✨
UCSCXenaShiny/json (API)
NEWS
# Install 'UCSCXenaShiny' in R: |
install.packages('UCSCXenaShiny', repos = c('https://shixiangwang.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/openbiox/ucscxenashiny/issues
Pkgdown:https://openbiox.github.io
- TCGA.organ - TCGA: Organ Data
- ccle_absolute - ABSOLUTE Result of CCLE Database
- ccle_info - Phenotype Info of CCLE Database
- ccle_info_fine - Cleaned Phenotype Info of CCLE Database for grouping
- pcawg_info - Phenotype Info of PCAWG Database
- pcawg_info_fine - Cleaned Phenotype Info of PCAWG Database for grouping
- pcawg_purity - Purity Data of PCAWG
- tcga_clinical - Toil Hub: TCGA Clinical Data
- tcga_clinical_fine - Toil Hub: Cleaned TCGA Clinical Data for grouping
- tcga_genome_instability - TCGA: Genome Instability Data
- tcga_gtex - Toil Hub: Merged TCGA GTEx Selected Phenotype
- tcga_purity - TCGA: Purity Data
- tcga_subtypes - TCGA Subtype Data
- tcga_surv - Toil Hub: TCGA Survival Data
- toil_info - Toil Hub: TCGA TARGET GTEX Selected Phenotype
cancer-datasetshiny-appsucsc-xena
Last updated 21 days agofrom:fbfec2b8b0. Checks:OK: 7. Indexed: no.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Nov 22 2024 |
R-4.5-win | OK | Nov 22 2024 |
R-4.5-linux | OK | Nov 22 2024 |
R-4.4-win | OK | Nov 22 2024 |
R-4.4-mac | OK | Nov 22 2024 |
R-4.3-win | OK | Nov 22 2024 |
R-4.3-mac | OK | Nov 22 2024 |
Exports:.opt_pancan%>%analyze_gene_drug_response_assoanalyze_gene_drug_response_diffapp_runapp_run2available_hostscalc_pw_mut_cnvezcorezcor_batchezcor_partial_corget_ccle_cn_valueget_ccle_gene_valueget_ccle_mutation_statusget_ccle_protein_valueget_pancan_cn_valueget_pancan_gene_valueget_pancan_methylation_valueget_pancan_miRNA_valueget_pancan_mutation_statusget_pancan_protein_valueget_pancan_transcript_valueget_pancan_valueget_pcawg_APOBEC_mutagenesis_valueget_pcawg_fusion_valueget_pcawg_gene_valueget_pcawg_miRNA_valueget_pcawg_promoter_valuekeep_cat_colsload_datamol_quick_analysisquery_molecule_valuequery_pancan_valuequery_tcga_groupquery_toil_value_dftcga_surv_gettcga_surv_plotvis_ccle_gene_corvis_ccle_tpmvis_dim_distvis_gene_corvis_gene_cor_cancervis_gene_cross_omicsvis_gene_drug_response_assovis_gene_drug_response_diffvis_gene_immune_corvis_gene_msi_corvis_gene_pw_corvis_gene_stemness_corvis_gene_TIL_corvis_gene_tmb_corvis_identifier_corvis_identifier_dim_distvis_identifier_grp_comparisonvis_identifier_grp_survvis_identifier_multi_corvis_pancan_anatomyvis_pathway_cross_omicsvis_pcawg_distvis_pcawg_gene_corvis_pcawg_unicox_treevis_toil_Mutvis_toil_Mut_cancervis_toil_TvsNvis_toil_TvsN_cancervis_unicox_tree
Dependencies:abindaskpassbackportsbase64encbitbit64bootbroombslibcachemcarcarDataclicliprcolorspacecommonmarkcorrplotcowplotcpp11crayoncurlDerivdigestdoBydplyrezcoxfansifarverfastmapfontawesomeforcatsforestmodelFormulafsgenericsggplot2ggpubrggrepelggsciggsignifglueGPArotationgridExtragtablehmshtmltoolshttpuvhttrisobandjquerylibjsonlitelabelinglaterlatticelifecyclelme4magrittrMASSMatrixMatrixModelsmemoisemgcvmicrobenchmarkmimeminqamnormtmodelrmunsellnlmenloptrnnetnumDerivopensslpbkrtestpillarpkgconfigpolynomppcorprettyunitsprogresspromisespsychpurrrquantregR6rappdirsRColorBrewerRcppRcppEigenreadrrlangrstatixsassscalesshinysourcetoolsSparseMstringistringrsurvivalsystibbletidyrtidyselecttzdbUCSCXenaToolsutf8vctrsviridisLitevroomwithrxtable