Load human gastrula data and create norm counts and knn matrices using Seurat | Run CIARA | Identifying highly localized genes | Cluster analysis using CIARA highly localized genes | Sub-cluster analysis using CIARA | CIARA identifies three rare population of cells with highly distinctive transcriptional profile
Package: CIARA 0.1.0
CIARA: Cluster Independent Algorithm for Rare Cell Types Identification
Identification of markers of rare cell types by looking at genes whose expression is confined in small regions of the expression space <https://github.com/ScialdoneLab>.
Authors:
CIARA_0.1.0.tar.gz
CIARA_0.1.0.zip(r-4.7-any)CIARA_0.1.0.zip(r-4.6-any)CIARA_0.1.0.zip(r-4.5-any)
CIARA_0.1.0.tgz(r-4.6-any)CIARA_0.1.0.tgz(r-4.5-any)
CIARA_0.1.0.tar.gz(r-4.7-any)CIARA_0.1.0.tar.gz(r-4.6-any)
CIARA_0.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
CIARA/json (API)
| # Install 'CIARA' in R: |
| install.packages('CIARA', repos = c('https://gabrielelubatti.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:fdba9cd1aa. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 243 | ||
| source / vignettes | OK | 310 | ||
| linux-release | OK | 201 | ||
| macos-release | OK | 157 | ||
| macos-oldrel | OK | 138 | ||
| windows-devel | OK | 121 | ||
| windows-release | OK | 127 | ||
| windows-oldrel | OK | 88 | ||
| wasm-release | OK | 140 |
Exports:CIARACIARA_genecluster_analysis_integrate_rarecluster_analysis_subfind_resolutionget_background_fullguide_edge_colourbarmarkers_cluster_seuratmerge_clusterplot_balloon_markerplot_geneplot_genes_sumplot_heatmap_markerplot_interactiveplot_umapselection_localized_genestest_hvgwhite_black_markers
Dependencies:base64encBiobaseBiocGenericscachemclicpp11dplyrfarverfastmapgenericsggforceggplot2ggraphggrepelgluegraphlayoutsgridExtragtableigraphisobandjsonlitelabelinglatticelifecyclemagrittrMASSMatrixmemoisepillarpkgconfigpolyclippurrrR6RColorBrewerRcppRcppArmadillorlangS7scalesstringistringrsystemfontstibbletidygraphtidyrtidyselecttweenrutf8vctrsviridisviridisLitewithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| CIARA | CIARA |
| CIARA_gene | CIARA_gene |
| cluster_analysis_integrate_rare | cluster_analysis_integrate_rare |
| cluster_analysis_sub | cluster_analysis_sub |
| find_resolution | find_resolution |
| get_background_full | get_background_full |
| markers_cluster_seurat | markers_cluster_seurat |
| merge_cluster | merge_cluster |
| plot_balloon_marker | plot_balloon_marker |
| plot_gene | plot_gene |
| plot_genes_sum | plot_genes_sum |
| plot_heatmap_marker | plot_heatmap_marker |
| plot_interactive | plot_interactive |
| plot_umap | plot_umap |
| selection_localized_genes | selection_localized_genes |
| test_hvg | test_hvg |
| white_black_markers | white_black_markers |