As canbruce1234 already pointed out in August, it seems to be hard-coded that the kinaseSubstrateScore function uses the mouse motifs for scoring. As the package comes with motifs for human, mouse, and rat kinases, this is at least misleading, especially as it does not state that it should only be used with mouse data, nor does it throw an error when using human data. Manually replacing 'motif.mouse.list ' with 'motif.human.list' seems to do the trick. Am I missing something obvious here?
As canbruce1234 already pointed out in August, it seems to be hard-coded that the kinaseSubstrateScore function uses the mouse motifs for scoring. As the package comes with motifs for human, mouse, and rat kinases, this is at least misleading, especially as it does not state that it should only be used with mouse data, nor does it throw an error when using human data. Manually replacing 'motif.mouse.list ' with 'motif.human.list' seems to do the trick. Am I missing something obvious here?