get_mart

Make a connection to the release-matched Ensembl database and saves the object as an RDS file.

Inputs

Channel name	Description	Type
`opt`	A map of task-specific variables.	`map`
`tag`	An identifier to use in the tag directive.	`string`
`organism`	The organism name (eg. mus musculus) that will be converted to an Ensembl species (eg. mmusculus).	`string`
`release`	Ensembl database release version (eg. 101).	`string`

Emission name	Description	Type	Filename pattern
`opt`	A map of task-specific variables.	`map`
`task`	YAML-formatted file of task parameters and software versions used by the task.	`file`	`task.yaml`
`mart`	RDS object of a biomaRt connection.	`file`	`mart.rds`

biomaRt provides an interface to a growing collection of databases implementing the BioMart software suite.

R is a free software environment for statistical computing and graphics.