In bioinfocz/scdrake: A pipeline for droplet-based single-cell RNA-seq data secondary analysis implemented in the drake Make-like toolkit for R language

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Here you can find some basic {drake} functions (reference.

However, we encourage all users to read official book for the {drake} package. While it is not necessary to know all {drake} internals to successfully run the {scdrake} pipeline, its knowledge is a plus.

• Assign to variable or read target result: drake::loadd() and drake::readd()
• Show outdated targets: drake::outdated()
• List the targets that completed in the current or previous call to drake::make(): drake::drake_done()
• List the targets that quit in error during drake::make(): drake::drake_failed()
• Get diagnostic metadata on a target: drake::diagnose()
• List the dependencies of a target: drake::deps_target()
• Find out why a target is out of date: drake::deps_profile()
• Manually invalidate a target: drake::clean()

Some functions are also usable in a reproducible manner similar to drake::r_make(), i.e. first, _drake.R-like file is sourced and a separate new R process is launched. Examples: drake::r_outdated(), drake::r_deps_target(). The list of such functions can be found here

bioinfocz/scdrake documentation built on Sept. 19, 2024, 4:43 p.m.