Package: RcwlPipelines 1.23.0

Qiang Hu

RcwlPipelines: Bioinformatics pipelines based on Rcwl

A collection of Bioinformatics tools and pipelines based on R and the Common Workflow Language.

Authors:Qiang Hu [aut, cre], Qian Liu [aut], Shuang Gao [aut]

RcwlPipelines_1.23.0.tar.gz
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RcwlPipelines.pdf |RcwlPipelines.html✨
RcwlPipelines/json (API)
NEWS

# Install 'RcwlPipelines' in R:

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

On BioConductor:RcwlPipelines-1.23.0(bioc 3.21)RcwlPipelines-1.22.0(bioc 3.20)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

software workflowstep alignment preprocessing qualitycontrol dnaseq rnaseq dataimport immunooncology

4.89 score 1 packages 26 scripts 263 downloads 12 exports 115 dependencies

Last updated 4 months agofrom:77e9e9a5d4. Checks:1 OK, 7 NOTE. Indexed: yes.

Target	Result	Latest binary
Doc / Vignettes	OK	Feb 03 2025
R-4.5-win	NOTE	Feb 03 2025
R-4.5-mac	NOTE	Feb 03 2025
R-4.5-linux	NOTE	Feb 03 2025
R-4.4-win	NOTE	Feb 03 2025
R-4.4-mac	NOTE	Feb 03 2025
R-4.3-win	NOTE	Feb 03 2025
R-4.3-mac	NOTE	Jan 04 2025

Exports:Command Container cwlHub cwlInstall cwlLoad cwlSearch cwlUpdate mcols searchContainer show title Type

Dependencies:askpass backports base64enc base64url basilisk basilisk.utils batchtools BH BiocFileCache BiocGenerics BiocParallel bit bit64 blob brew bslib cachem checkmate cli clipr codetools colorspace commonmark cpp11 crayon curl data.table DBI dbplyr DiagrammeR digest dir.expiry dplyr evaluate fansi farver fastmap filelock fontawesome formatR fs futile.logger futile.options generics git2r glue here highr hms htmltools htmlwidgets httpuv httr igraph jquerylib jsonlite knitr labeling lambda.r later lattice lifecycle magrittr Matrix memoise mime munsell openssl pillar pkgconfig plogr png prettyunits progress promises purrr R.methodsS3 R.oo R.utils R6 rappdirs RColorBrewer Rcpp RcppTOML Rcwl readr reticulate rlang rmarkdown rprojroot RSQLite rstudioapi S4Vectors sass scales shiny snow sourcetools stringi stringr sys tibble tidyr tidyselect tinytex tzdb utf8 vctrs viridisLite visNetwork vroom withr xfun xtable yaml

RcwlPipelines: Bioinformatics tools and pipelines based on Rcwl

Qiang Hu, Qian Liu

Rendered fromRcwlPipelines.Rmdusingknitr::rmarkdownon Feb 03 2025.

Last update: 2021-02-25
Started: 2019-03-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
cwlHub	Command Container cwlHub cwlHub-class mcols,cwlHub-method show,cwlHub-method title Type [,cwlHub,ANY,ANY,ANY-method
cwlInstall	cwlInstall
cwlLoad	cwlLoad
cwlSearch	cwlSearch
cwlUpdate	cwlUpdate
RcwlPipelines	RcwlPipelines
seawrch containers	searchContainer

Usage by other packages (reverse dependencies)