Package: EWCE 1.15.0
Alan Murphy
EWCE: Expression Weighted Celltype Enrichment
Used to determine which cell types are enriched within gene lists. The package provides tools for testing enrichments within simple gene lists (such as human disease associated genes) and those resulting from differential expression studies. The package does not depend upon any particular Single Cell Transcriptome dataset and user defined datasets can be loaded in and used in the analyses.
Authors:
EWCE_1.15.0.tar.gz
EWCE_1.15.0.zip(r-4.5)EWCE_1.15.0.zip(r-4.4)EWCE_1.15.0.zip(r-4.3)
EWCE_1.15.0.tgz(r-4.4-any)EWCE_1.15.0.tgz(r-4.3-any)
EWCE_1.15.0.tar.gz(r-4.5-noble)EWCE_1.15.0.tar.gz(r-4.4-noble)
EWCE_1.15.0.tgz(r-4.4-emscripten)EWCE_1.15.0.tgz(r-4.3-emscripten)
EWCE.pdf |EWCE.html✨
EWCE/json (API)
NEWS
| # Install 'EWCE' in R: |
| install.packages('EWCE', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/nathanskene/ewce/issues
On BioConductor:EWCE-1.15.0(bioc 3.21)EWCE-1.14.0(bioc 3.20)
geneexpressiontranscriptiondifferentialexpressiongenesetenrichmentgeneticsmicroarraymrnamicroarrayonechannelrnaseqbiomedicalinformaticsproteomicsvisualizationfunctionalgenomicssinglecelldeconvolutionsingle-cellsingle-cell-rna-seqtranscriptomics
Last updated 2 months agofrom:0293aa55a0. Checks:OK: 3 NOTE: 4. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 29 2024 |
| R-4.5-win | NOTE | Nov 29 2024 |
| R-4.5-linux | NOTE | Nov 29 2024 |
| R-4.4-win | NOTE | Nov 29 2024 |
| R-4.4-mac | NOTE | Nov 29 2024 |
| R-4.3-win | OK | Nov 29 2024 |
| R-4.3-mac | OK | Nov 29 2024 |
Exports:add_res_to_merging_listbin_columns_into_quantilesbin_specificity_into_quantilesbootstrap_enrichment_testcheck_ewce_genelist_inputscheck_percent_hitscontrolled_geneset_enrichmentctd_to_scedrop_uninformative_genesewce_expression_dataewce_plotexample_bootstrap_resultsexample_transcriptome_resultsfilter_ctd_genesfilter_genes_without_1to1_homologfilter_nonorthologsfix_bad_hgnc_symbolsfix_bad_mgi_symbolsfix_celltype_namesgenerate_bootstrap_plotsgenerate_bootstrap_plots_for_transcriptomegenerate_celltype_dataget_celltype_tablelist_speciesload_rdatamerge_ctdmerge_scemerge_two_expfilesmerged_ewceplot_ctdsct_normalizestandardise_ctd
Dependencies:abindAnnotationDbiAnnotationHubapeaplotaskpassbabelgenebackportsbase64encBHBiobaseBiocFileCacheBiocGenericsBiocManagerBiocParallelBiocVersionBiostringsbitbit64bitopsblobbootbroombslibcachemcarcarDataclicliprcodetoolscolorspacecorrplotcowplotcpp11crayoncrosstalkcurldata.tableDBIdbplyrDelayedArrayDerivdigestdoBydplyrevaluateewceDataExperimentHubfansifarverfastmapfilelockfontawesomeformatRFormulafsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggfunggplot2ggplotifyggpubrggrepelggsciggsignifggtreegluegprofiler2gridExtragridGraphicsgrrgtableHGNChelperhighrhmshomologenehtmltoolshtmlwidgetshttrIRangesisobandjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelazyevallifecyclelimmalme4magrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmemoisemgcvmicrobenchmarkmimeminqamodelrmunsellnlmenloptrnnetnumDerivopensslorthogenepatchworkpbkrtestpillarpkgconfigplogrplotlyplyrpngpolynomprettyunitsprogresspromisespurrrquantregR.cacheR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRcppArmadilloRcppEigenRCurlreadrrepmisreshape2rlangrmarkdownRNOmniRSQLiterstatixS4ArraysS4VectorssassscalesSingleCellExperimentsnowSparseArraySparseMsplitstackshapestatmodstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselecttidytreetinytextreeiotzdbUCSC.utilsutf8vctrsviridisLitevroomwithrxfunXVectoryamlyulab.utilszlibbioc
