See Retention Time Recomputing principles if needed.
If you recompute retention time for a given User context, it will not automatically recompute retention time for child contexts (i.e. contexts under the selected context, if exist).
At present, you need to recompute retention time of all your context tree 'manually'. For that, no specific order is needed as final child species are used.
Required conditions to run the Retention Time Recomputing algorithm:
If above conditions are respected, then follow these steps:
MS Identifications→Context→Algorithms→Retention Time Recomputing to display settings dialog
On top of the dialog, is displayed the User context to process.
Retention Time Alignment panel
Use alignment coefficients: if you have previously run the Retention Time Alignment algorithm (on the same UserContext you want to recompute RT) and if you want to take into account the alignment coefficients in the retention time computing, check this option
Don't take into account outliers: check this option if you want the algorithm to skip final outliers species (based on Grubbs method)
Computing Method panel
Average: use average to compute the parent species RT from final child species RTs
Median: use median to compute the parent species RT from final child species RTs
Weighted average (by score): use average weighted by score to compute the parent species RT from final child species RTs
Best score per identification + average: from final child species, take for each identification the RT of the best score species then use average to compute the parent species RT
Best score per identification + median: from final child species, take for each identification the RT of the best score species then use median to compute the parent species RT
Use memory tuning: if NOT selected, the process will be faster but memory consuming. If selected, the process will be a little bit slower but memory efficient.