'NAs introduced by coercion' error in FindSpatiallyVariableFeatures()

[vukojicic-nevena]

Hi, I'm having a strange error when computing Moran's I on Slide-seq data. FindSpatiallyVariableFeatures() function is failing with this error:

Error in sequence.default(n..1, from = seq.int(s.1, length(df), s.1),  : 'from' contains NAs
Calls: FindSpatiallyVariableFeatures ... as.matrix -> as.matrix -> as.matrix.dist -> sequence.default

In addition: Warning messages:
1: In dist(x = pos) : NAs introduced by coercion
2: In sequence.default(n..1, from = seq.int(s.1, length(df), s.1),  :
NAs introduced by coercion to integer range

Anyone know how to resolve this and what is causing it? Thanks!

[dcollins15]

Hi @vukojicic-nevena ,

Thank you for reaching out! We’re always grateful when folks take the time to help make Seurat better 🙂

Unfortunately, with the details provided, we cannot reproduce your issue. To help us better understand and resolve this issue, please ensure that you provide the following information when reporting a bug:

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[liuzz2024]

I have encountered the same problem. test_data2 <- FindSpatiallyVariableFeatures(test_data2, assay = "SCT",

                               features = variable_top1000,
                               selection.method = "moransi",
                               verbose = T) #"markvariogram"

Computing Moran's I |++++++++++++++++++++++++++++++++++++++++++++++++++| 100% elapsed=13h 16m 23s 警告信息: In dist(x = pos) : NAs introduced by coercion

DEGs<- SpatiallyVariableFeatures(test_data2, method = "moransi",assay = "SCT") Error in xtfrm.data.frame(x) : cannot xtfrm data frames