quantification

A variety of methods are implemented that can take FastQ files and output quantified expression data, creating intermediate files such as indexes as required.

workflow

Steps

Quantify datasets

Datasets are grouped according to the presence of quantification/* in the workflows. Quantification workflows are dispatched according to the workflow values.

workflow:L25

Printable channels

These channels can be dumped to the output device using the `-dump-channels` Nextflow option with the workflow root tag and the channel tag, for example: quantification:tasks.

Tag	Description
`:quantification.cell_ranger`	Datasets that include a `quantification/cell_ranger` workflow.
`:quantification.cell_ranger_arc`	Datasets that include a `quantification/cell_ranger_arc` workflow.
`:quantification.cell_ranger_multi`	Datasets that include a `quantification/cell_ranger_multi` workflow.
`:quantification.unknown`	Any datasets that contain an as-yet unimplemented quantification method.
`:result`	Channel containing all of the parameters with new keys added.
`:tasks`	Each task’s output `task.yaml` files from the `task` channel.