integration using rPCA with reference or without it?
0
0
Entering edit mode
16 months ago
paria ▴ 90

Hello all,

I have decided to integrate my single cell dataset using rPCA rather than CCA because I thought using CCA overcorrect my dataset. I know there is two approaches using rPCA: to use references in "FindIntegrationAnchors" function and the reason is that it reduces the number of pairwise comparisons and is less computationally intensive which is good for large dataset. My first question is that as using references limits finding anchors by reducing the number of pairwise comparisons do I miss anything doing this method? My second question is that if I want to use rPCA and my dataset is not that large (to make me set references) do you recommend to do this method using references or not? I mean is the only purpose of setting reference to make it less computationally intensive? Any comment is greatly appreciated

Paria

integration Seurat rPCA Single-cell • 569 views
ADD COMMENT

Login before adding your answer.

Traffic: 1754 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6