search

YosefLab / scone

53 stars 12 forks source link

Error with memory #100

Open jgarces02 opened 6 years ago

jgarces02 commented 6 years ago

Hi @YosefLab team,

I'm trying to apply scone for a single-cell analysis but RStudio promps the following message... I don't understand it because I'm not using so much cells (my matrix dimensions are 606 cells and 13000 genes) and my PC has 32 GB of RAM.

Error: cannot allocate vector of size 56.2 Mb
In addition: Warning message:
In .local(x, ...) :
  none_uq returned at least one NA value. Consider removing it from the comparison.
 In the meantime, failed methods have been filtered from the output.

And this is the code:

df_scone <- scone(df_scone, scaling = scaling, run = T, zero = "postadjust", return_norm = "in_memory",
                  eval_kclust = 2:8, stratified_pam = T, k_qc = 0, k_ruv = 3,
                  adjust_bio = "no", adjust_batch = "force")

Any idea, please? Thanks in advance!