computeMatrix: Optional arguments
only for scale-regions mode:
| Command | Expected Input | Explanation | |:----😐:----😐:----| | --regionBodyLength | INTEGER | Distance in bp to which all regions are going to be fitted. (default: 1000) | | --startLabel | NAME | Label shown in the plot for the start of the region. Default is region start site, but this could be changed to anything, e.g. “peak start”. (default: TSS) | | --endLabel | NAME | Label shown in the plot for the region end. Default is the region end site. (default: TES) |
only for reference-point mode:
| Command | Expected Input | Explanation | |:----😐:----😐:----| | --referencePoint | {TSS;TES;center} | The reference point for the plotting could be either the region start (TSS), the region end (TES) or the center of the region. (default: TSS) | | --nanAfterEnd | | If set, any values after the region end are discarded. This is useful to visualize the region end when not using the scale-regions mode and when the reference-point is set to the start of the region. (default: False) |
https://github.com/deeptools/deepTools/wiki/All-command-line-options#bamCoverage