Question: error when running SDA on exampleSE2
0
gravatar for diana.hendrickx
4 months ago by
diana.hendrickx0 wrote:

When I run the code

SDA(exampleSE2)

for the matrix generated in paragraph 3.2, I get the following error: Error in smooth.spline(lambda, pi0, df = smooth.df) : missing or infinite values in inputs are not allowed

However, this input has no missing or infinite values. I created exampleSE2 exactly as described in paragraph 3.2 of the Vignette.

Session info R version 3.5.0 (2018-04-23) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows >= 8 x64 (build 9200)

Matrix products: default

locale: [1] LCCOLLATE=EnglishUnited States.1252 LCCTYPE=EnglishUnited States.1252
[3] LCMONETARY=EnglishUnited States.1252 LCNUMERIC=C
[5] LC
TIME=English_United States.1252

attached base packages: [1] stats4 parallel stats graphics grDevices utils datasets methods base

other attached packages: [1] SDAMS1.2.1 SummarizedExperiment1.12.0 DelayedArray0.8.0
[4] BiocParallel
1.16.6 matrixStats0.54.0 GenomicRanges1.34.0
[7] GenomeInfoDb1.18.2 IRanges2.16.0 S4Vectors0.20.1
[10] mwt
0.2.10 OCplus1.56.0 limma3.38.3
[13] Biobase2.42.0 BiocGenerics0.28.0

loaded via a namespace (and not attached): [1] qvalue2.14.1 tidyselect0.2.5 akima0.6-2
[4] remotes
2.0.4 reshape21.4.3 purrr0.3.2
[7] splines3.5.0 lattice0.20-35 colorspace1.4-1
[10] yaml
2.2.0 survival2.41-3 rlang0.3.4
[13] pillar1.4.0 glue1.3.1 sp1.3-1
[16] trust
0.1-7 GenomeInfoDbData1.2.0 plyr1.8.4
[19] stringr1.4.0 zlibbioc1.28.0 munsell0.5.0
[22] gtable
0.3.0 curl3.3 Rcpp1.0.1
[25] scales1.0.0 BiocManager1.30.4 XVector0.22.0
[28] ggplot2
3.1.1 stringi1.4.3 dplyr0.8.1
[31] grid3.5.0 tools3.5.0 bitops1.0-6
[34] magrittr
1.5 RCurl1.95-4.12 lazyeval0.2.2
[37] tibble2.1.1 crayon1.3.4 pkgconfig2.0.2
[40] MASS
7.3-49 Matrix1.2-17 assertthat0.2.1
[43] rstudioapi0.10 R62.4.0 multtest2.38.0
[46] compiler
3.5.0

Diana

software error • 99 views
ADD COMMENTlink written 4 months ago by diana.hendrickx0
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