Parameters and Configuration¶

System parameters¶

-profile¶

Type:	string
Default:	`none`

using predefined profile in your ``conf`` folder

--reads¶

Type:	string
Default:	`none`

need to specified to parsing input reads

--designfile¶

Type:	string
Default:	`false`

optional when need to perform comparison between conditions

--comparefile¶

Type:	string
Default:	`false`

optional when need to perform comparison between conditions

--singleEnd¶

Type:	boolean
Default:	`false`

*set true to run analysis on single end data set *

--skip_qc¶

Type:	boolean
Default:	`false`

*set true to skip fastp processing step *

--strand¶

Type:	boolean
Default:	`false`

*set true to run analysis in strand specific mode *

--skip_multiqc¶

Type:	boolean
Default:	`false`

*set true to skip multiqc report section from multisamples *

--without_replicate¶

Type:	boolean
Default:	`false`

set ``true`` to perform comparison without replicate, using a poisson sourced test instead

--skip_gsea¶

Type:	boolean
Default:	`false`

*set true to skip Gene Set Enrichment Analysis step *