Question: error when running SDA on exampleSE2
gravatar for diana.hendrickx
22 days ago by
diana.hendrickx0 wrote:

When I run the code


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


software error • 60 views
ADD COMMENTlink written 22 days ago by diana.hendrickx0
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 146 users visited in the last hour