scImpute issues

Imputation error

4

Hi Vivian, Thank you so much for the scImpute package. I am relatively new to it and I am still learning. When I ran with the code below with v0.0.9...

kin182

Error in pca$x[, 1:npc] : subscript out of bounds

1

Hello, I obtained the following error when running the imputation on my dataset. Could you please advise what's the reason for this error? Thanks. [1] "reading in raw count matrix...

1213812138zqc

error of 'missing value where TRUE/FALSE needed'

6

Hi Vivian, I am using scImpute on my several scRNA data sets. Thank you very much for providing such wonderful tools for us. Actually, some of my data sets worked...

helianthuszhu

resume scImpute?

3

hi, i am running scImpute (thank you!) on our cluster with: [1] "number of genes in raw count matrix 11213" [1] "number of cells in raw count matrix 14865" and...

dpschreiner

About the 'genelen'

1

"'genelen' must be specified when type = 'TPM'!". Different version of genomic has different length? And the file in UCSC is about the whole length, not the cDNA. Could you...

zh-Bian

Running Scimpute for Allele specific analysis

Hello a greate tool for single cell analysis, i wanted use tool for datanormalization allele specific analysis, i have two file alleleA and AlleleB count matrix file need suggestion that...

Hemantcnaik

Error in seq.default(lsmin, (Re(log2(midmin)) - 0.5), stepm) : 'from' must be a finite number

2

Hi Vivian, I am trying to impute dropouts from a csv of UMI values ( 7 genes and 12244 cells). The codes are listed below. scimpute ("E:/gdT.csv", Kcluster = 2,...

Yale73