compatibility with infercnv 1.9.1

[zhangguangxin1234]

Hi. Thanks for your great job!

Recently I am working with infercnv(version:1.9.1) ， after run inferCNV as you mentioned in the manual, the cell_grouping result was distinct as you mentioned.

main parameters as follow:
cutoff=0.1, window_length= 20, out_dir='./res', cluster_by_groups=FALSE,denoise=T,analysis_mode='subclusters',HMM_type='i6',HMM=TRUE

So, any compatibility problems with new version of infercnv ?

[vailin1992]

Hi. Thanks for your great job!

Recently I am working with infercnv(version:1.9.1) ， after run inferCNV as you mentioned in the manual, the cell_grouping result was distinct as you mentioned.

main parameters as follow: cutoff=0.1, window_length= 20, out_dir='./res', cluster_by_groups=FALSE,denoise=T,analysis_mode='subclusters',HMM_type='i6',HMM=TRUE

So, any compatibility problems with new version of infercnv ?

Some default parameters were changed in updated inferCNV package.

The default parameter for tumor_subcluster_partition_method is “leiden”，you can manually change it to “random_trees”:
tumor_subcluster_partition_method='random_trees', #Options('leiden', 'random_trees', 'qnorm')

Hope this helps.

[zhangguangxin1234]

多谢 祝你早日CNS达成！ @vailin1992