Closed antheatravas closed 4 months ago
Hello,
I can help with a few different things here. Let's start with the easier changes:
The number of mutations is determined by filtering variant_of_interest differently to accept more mutations, and it is based on the cutoff values of the tapestri_h5_to_sce function. This is problem dependent and without knowing more we can't adequately help point in the right direction other than to decrease the values for each filter. Alternatively, in our example vignette we use genes_of_interest to prune our variant list down. Please feel free to ask more specific questions about the different filters and we can help you out.
How can I get more mutations in the clonal architecture portion of the clonograph? The default is set to 3 but I'd like to increase it.
Also I get this issue with the trajectory analysis... sce_subset<-trajectory_analysis(sce_subset) [1] "Building MDP" [1] 27 [1] "Adding Weighted Edges" Error in UseMethod("rename") : no applicable method for 'rename' applied to an object of class "NULL"
Appreciate any support-thanks!