Salmon quant mapping - gws_omix

Typing name : TASK.gws_omix.SalmonQuantMapping

Brick : gws_omix

SalmonQuantMapping class. Represents a process that wraps Salmon pseudo-aligment RNAseq mapping program (salmon quant).

Configuration options * threads: Multi threading options: number of threads to use (min=2). [Default = 2].

Input

FastqFolder

Fastq Folder containing all RNA-sequencing file

Fastq folder

MetadataFile

File containing metadata information link to file and sample (see Gencovery hub documentation at: https://hub.gencovery.com/bricks/gws_omix/latest/doc/use-cases/undefined )

File

SalmonIndex

Folder containing Salmon index files

Folder

Output

TpmCountFile

Tpm genes expression counting files merged in one (see salmon quantmerge documentation)

File

RawCountFile

Raw count genes expression counting files merged in one (see salmon quantmerge documentation)

File

Configuration

threads

Optional

Number of threads [Default = 2]

Type : int

Default value : 2