extract the Best npc&K and add it to metadata

[maryam1717]

Dear IKAP team,
Thanks for the incredible package. I applied the IKAP on my ScRNA seq data and I got the results. but I don't know how I extract the Best one and add it to my metadata or add it as a Cluster column in my Seurat object.
any solution or recommendation would be appreciated.

[xizhihui]

Hi,
After you finished running the IKAP, you could get the PC_K.pdf in which B indicated the best PC (eg. 18) and Cluster (eg. 12). In the meta.data of Seurat object returned by IKAP, "PK18C12" would be best cluster column. If you wanna to generate the tsne or umap, just use RunTSNE or RunUMAP on the Seurat object with the first 18 pcs.
Hope it can help you.