Package: RcwlPipelines 1.28.0

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_1.28.0.tar.gz
RcwlPipelines_1.28.0.zip(r-4.7)RcwlPipelines_1.28.0.zip(r-4.6)RcwlPipelines_1.28.0.zip(r-4.5)
RcwlPipelines_1.28.0.tgz(r-4.6-any)RcwlPipelines_1.28.0.tgz(r-4.5-any)
RcwlPipelines_1.28.0.tar.gz(r-4.7-any)RcwlPipelines_1.28.0.tar.gz(r-4.6-any)
RcwlPipelines_1.28.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
RcwlPipelines/json (API)
NEWS

# Install 'RcwlPipelines' in R:

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

On BioConductor:RcwlPipelines-1.29.0(bioc 3.24)RcwlPipelines-1.28.0(bioc 3.23)

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

5.13 score 1 packages 30 scripts 328 downloads 12 exports 112 dependencies

Last updated from:01bab3cc84 (on RELEASE_3_23). Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: no.

Target	Result	Time	Files	Syslog
bioc-checks	ERROR	160
linux-devel-x86_64	NOTE	295
source / vignettes	OK	247
linux-release-x86_64	NOTE	271
macos-release-arm64	NOTE	144
macos-oldrel-arm64	NOTE	110
windows-devel	NOTE	185
windows-release	NOTE	197
windows-oldrel	NOTE	173
wasm-release	OK	141

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

Dependencies:askpass backports base64enc base64url basilisk batchtools BH BiocFileCache BiocGenerics BiocParallel bit bit64 blob brew bslib cachem checkmate cli clipr codetools commonmark cpp11 crayon curl data.table DBI dbplyr DiagrammeR digest dir.expiry dplyr evaluate farver fastmap filelock fontawesome formatR fs futile.logger futile.options generics git2r glue here highr hms htmltools htmlwidgets httpuv httr httr2 igraph jquerylib jsonlite knitr labeling lambda.r later lattice lifecycle magrittr Matrix memoise mime openssl otel pillar pkgconfig 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 May 25 2026.

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)