Package: scRNAstat 0.1.1
scRNAstat: A Pipeline to Process Single Cell RNAseq Data
A pipeline that can process single or multiple Single Cell RNAseq samples primarily specializes in Clustering and Dimensionality Reduction. Meanwhile we use common cell type marker genes for T cells, B cells, Myeloid cells, Epithelial cells, and stromal cells (Fiboblast, Endothelial cells, Pericyte, Smooth muscle cells) to visualize the Seurat clusters, to facilitate labeling them by biological names. Once users named each cluster, they can evaluate the quality of them again and find the de novo marker genes also.
Authors:
scRNAstat_0.1.1.tar.gz
scRNAstat_0.1.1.zip(r-4.5)scRNAstat_0.1.1.zip(r-4.4)scRNAstat_0.1.1.zip(r-4.3)
scRNAstat_0.1.1.tgz(r-4.4-any)scRNAstat_0.1.1.tgz(r-4.3-any)
scRNAstat_0.1.1.tar.gz(r-4.5-noble)scRNAstat_0.1.1.tar.gz(r-4.4-noble)
scRNAstat_0.1.1.tgz(r-4.4-emscripten)
scRNAstat.pdf |scRNAstat.html✨
scRNAstat/json (API)
# Install 'scRNAstat' in R: |
install.packages('scRNAstat', repos = c('https://xiayh17.r-universe.dev', 'https://cloud.r-project.org')) |
- AJ064_small_last_sce - Small 'AJ064' Seurat Data After Processed
- AJ064_small_sce - Small 'AJ064' Seurat Data Set
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 3 years agofrom:5baba4055e. Checks:OK: 1 WARNING: 6. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 17 2024 |
R-4.5-win | WARNING | Oct 17 2024 |
R-4.5-linux | WARNING | Oct 17 2024 |
R-4.4-win | WARNING | Oct 17 2024 |
R-4.4-mac | WARNING | Oct 17 2024 |
R-4.3-win | WARNING | Oct 17 2024 |
R-4.3-mac | WARNING | Oct 17 2024 |
Exports:%>%basic_filterbasic_find_markersbasic_markersbasic_qcbasic_workflow
Dependencies:abindaskpassbackportsbase64encBHbitopsbslibcachemcaToolscheckmatecliclusterclustreecodetoolscolorspacecommonmarkcowplotcpp11crayoncrosstalkcurldata.tabledeldirdigestdotCall64dplyrdqrngevaluatefansifarverfastDummiesfastmapfitdistrplusFNNfontawesomefsfuturefuture.applygenericsggforceggplot2ggraphggrepelggridgesglobalsgluegoftestgplotsgraphlayoutsgridExtragtablegtoolsherehighrhtmltoolshtmlwidgetshttpuvhttricaigraphirlbaisobandjquerylibjsonliteKernSmoothknitrlabelinglaterlatticelazyevalleidenlifecyclelistenvlmtestmagrittrMASSMatrixmatrixStatsmemoisemgcvmimeminiUImunsellnlmeopensslparallellypatchworkpbapplypillarpkgconfigplotlyplyrpngpolyclipprogressrpromisespurrrR6RANNrappdirsRColorBrewerRcppRcppAnnoyRcppArmadilloRcppEigenRcppHNSWRcppProgressRcppTOMLreshape2reticulaterlangrmarkdownROCRrprojrootRSpectraRtsnesassscalesscattermoresctransformSeuratSeuratObjectshinysitmosourcetoolsspspamspatstat.dataspatstat.explorespatstat.geomspatstat.randomspatstat.sparsespatstat.univarspatstat.utilsstringistringrsurvivalsyssystemfontstensortibbletidygraphtidyrtidyselecttinytextweenrutf8uwotvctrsviridisviridisLitewithrxfunxtableyamlzoo
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Small `AJ064` Seurat Data After Processed | AJ064_small_last_sce |
Small `AJ064` Seurat Data Set | AJ064_small_sce |
basic_filter | basic_filter |
Basic Find Markers | basic_find_markers |
Basic Markers | basic_markers |
Basic Quality Control | basic_qc |
Basic Workflow | basic_workflow |