Package: scrapbook 1.1.9

Aaron Lun

scrapbook: Single-cell RNA-seq analyses with scrapper

Demonstrates some basic analysis of single-cell RNA-seq data with scrapper. This includes quality control, normalization, feature selection, various forms of dimensionality reduction, clustering into subpopulations, and detection of marker genes. It is intended for users who already have some familiarity with R and want to get hands-on with some basic single-cell analyses.

Authors:Aaron Lun [aut, cre]

scrapbook_1.1.9.tar.gz
scrapbook_1.1.9.tar.gz(r-4.7-any)scrapbook_1.1.9.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
scrapbook/json (API)

# Install 'scrapbook' in R:

install.packages('scrapbook', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/libscran/scrapbook/issues

On BioConductor:scrapbook-1.1.8(books 3.24)scrapbook-1.0.0(books 3.23)

workflow singlecellworkflow datapkg

4.56 score 1 stars 2 packages 0 exports 187 dependencies

Last updated from:5d912e9ebb. Checks:1 NOTE, 2 WARNING, 1 ERROR. Indexed: yes.

This is a data package. Data packages may be large and do not get checked across all platforms.

Target	Result	Time
bioc-checks	NOTE	192
linux-devel	WARNING	373
source / vignettes	ERROR	446
linux-release	WARNING	402

Exports:

Dependencies:abind alabaster.base alabaster.matrix alabaster.ranges alabaster.sce alabaster.schemas alabaster.se AnnotationDbi AnnotationFilter AnnotationHub askpass assertthat assorthead babelgene base64enc beachmat beeswarm BH Biobase BiocBaseUtils BiocFileCache BiocGenerics BiocIO biocmake BiocManager BiocNeighbors BiocParallel BiocSingular BiocStyle BiocVersion Biostrings bit bit64 bitops blob bluster bookdown bslib BumpyMatrix cachem cigarillo cli cluster codetools cpp11 crayon curl DBI dbplyr DelayedArray DelayedMatrixStats digest dir.expiry dplyr dqrng DropletTestFiles DropletUtils dynamicTreeCut edgeR ensembldb evaluate ExperimentHub farver fastmap filelock FNN fontawesome formatR fs futile.logger futile.options generics GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges ggbeeswarm ggplot2 ggrepel glue gridExtra gtable gypsum h5mread HDF5Array highr htmltools httr httr2 igraph IRanges irlba isoband jquerylib jsonlite jsonvalidate KEGGREST knitr labeling lambda.r lattice lazyeval lifecycle limma magick magrittr Matrix MatrixGenerics matrixStats memoise mime MouseGastrulationData msigdbr openssl pheatmap pillar pkgconfig png ProtGenerics purrr R.methodsS3 R.oo R.utils R6 rappdirs RColorBrewer Rcpp RcppAnnoy RcppEigen RcppML RcppProgress RCurl restfulr rhdf5 rhdf5filters Rhdf5lib Rhtslib Rigraphlib rjson rlang rmarkdown Rsamtools RSpectra RSQLite rsvd rtracklayer Rtsne S4Arrays S4Vectors S7 sass ScaledMatrix scales scater scrapper scRNAseq scuttle Seqinfo SingleCellExperiment sitmo snow SparseArray sparseMatrixStats SpatialExperiment statmod stringi stringr SummarizedExperiment sys TENxPBMCData tibble tidyr tidyselect tinytex UCSC.utils utf8 uwot V8 vctrs vipor viridis viridisLite withr xfun XML XVector yaml

Vignettes and/or manual for this package failed to build, some documents may be unavailable. Please inspect thebuild logs for more information.

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scrapbook: Single-cell RNA-seq analyses with scrapper	scrapbook-package scrapbook

Package: scrapbook 1.1.9

scrapbook: Single-cell RNA-seq analyses with scrapper

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