Mat::init(): requested size is too large

[dhtc]

fails on a very large single-cell dataset (in this case ~80k cells)

[CJ1017]

I'm having a similar issue. Has anyone found a solution to this?

[rrydbirk]

I know this is an old problem, but I belive I fixed it here: https://github.com/velocyto-team/velocyto.R/pull/126 devtools::install_github("rrydbirk/velocyto.R")

At least it worked on my dataset with the same error. However, that many cells require endless computation time (trust me, the visualization will take days!). I would suggest downsampling instead to, e.g., 20-30k cells max. This could be done through sample(cellnames, 2e4). Also, be aware that Velocyto is not really made for multi-sample inputs.

[blin100]

@rrydbirk Hi, thank you SO much for the fix, that was a glorious.