Open mengchengyao opened 5 years ago
Thanks!
The failure seems to be still in the generating of the Seurat object. Can you post a small version of the counts matrix (~20 cells)?
Thanks!
The failure seems to be still in the generating of the Seurat object. Can you post a small version of the counts matrix (~20 cells)?
Thanks! I tryied, but failed. [1] "test" [1] "Reading single-cell data..." [1] "Create Seurat object..." Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **| Calculating gene means 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **| Calculating gene variance to mean ratios 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **| Regressing out: nUMI |======================================================================| 100%Error in { : task 1 failed - "incorrect number of dimensions"
my counts matrix
head(as.matrix(expressionmatrix)[1:1000,1:10]) AAACCTGAGAGCCCAA AAACCTGCAGCTATTG AAACCTGCAGCTGGCT AAACCTGCAGTCAGAG Xkr4 0 0 0 0 Gm1992 0 0 0 0 Gm37381 0 0 0 0 Rp1 0 0 0 0 Rp1.1 0 0 0 0 Sox17 0 0 0 0 AAACCTGTCAACCATG AAACCTGTCACAACGT AAACCTGTCAGCTTAG AAACCTGTCCGTTGCT Xkr4 0 0 0 0 Gm1992 0 0 0 0 Gm37381 0 0 0 0 Rp1 0 0 0 0 Rp1.1 0 0 0 0 Sox17 0 0 0 0 AAACCTGTCTCAACTT AAACCTGTCTGCTTGC Xkr4 0 0 Gm1992 0 0 Gm37381 0 0 Rp1 0 0 Rp1.1 0 0 Sox17 0 0
Best Wishes
you need to save it as a file and upload it.
you need to save it as a file and upload it.
Thanks! I dit it as you said, but failed. Howerver I passed by another way, I used CreateSinglerObject function and seurat object without CreateSinglerSeuratObject function, and I get what I wanted!
Best Wishes
Hi, thanks for developing SingleR. Great tool! When i created object with CreateSinglerSeuratObject,
I get error with "in { : task 1 failed - "incorrect number of dimensions"." I also tryied counts file, get the same Error.
Best Wishes