FilesExtra: High-level methods for 'Files' objects and related

In BaseSpaceR: R SDK for BaseSpace RESTful API

Description

Methods to handle various files types.

Details

The Files resource provides access to files stored in BaseSpace. A file should be seen as a data stream and associated attributes (date created, size, type, etc.).

For known file types (.bam, .vcf, etc.) we offer wrappers to 'map' this objects to various Bioconductor objects.

Author(s)

Adrian Alexa

References

https://developer.basespace.illumina.com/docs/content/documentation/rest-api/api-reference

See Also

AppAuth, AppResults and Files

Examples

data(aAuth)


## get one AppResult
reseq <- AppResults(listAppResults(aAuth, projectId = 21383369, Limit = 1))

f <- listFiles(reseq)
TotalCount(f)
Name(f)

## list only the BAM files
f <- listFiles(aAuth, appResultId = Id(reseq), Extensions = ".bam")
Name(f)

## construct the BAMFile
##...

BaseSpaceR documentation built on Nov. 8, 2020, 5:12 p.m.