geneID()function to work with latest WormBase release that now returns an extra biotype column.
mclapply()calls in favor of
pblapply()for better compatibility across platforms.
progress = TRUEoption for functions that can take a long time to parse data. Previously, this was always enabled but now can be disabled using this
progress = FALSE. Note that
invisible(capture.output(x))also works to suppress progress bars.
pbapply::pblapply. This is now disabled for all functions by default, but can be enabled with
progress = TRUE. pbapply package is now declared in “Enhances:” rather than “Imports:”.
WBGene) are returned.
dirargument for all functions that parse files from WormBase FTP server. Files now always download to
descriptionfunction, now that the corresponding file on the WormBase FTP server is no longer malformed. This has been fixed as of WS274.