bgorissen

You should call runHarmony with eigs.dim instead of eigs.dims. The [example](https://github.com/r3fang/SnapATAC/tree/master/examples/10X_snATAC) provides the following code: ``` > library(harmony); > x.after.sp = runHarmony( obj=x.sp, eigs.dims=1:22, meta_data=x.sp@sample # sample index ); ```...

This error occurs due to spaces in the folder or file name. The arguments to snaptools should be between quotes (but currently they are not).