I recently tried to run some sample code from R package: circlize,
and got an error message (please see below) ===== > library(circlize) >
circos.genomicInitialize(df) > df = data.frame(name = c("TP53", "TP63",
"TP73"), + start = c(7565097, 189349205, 3569084),
+ end = c(7590856, 189615068, 3652765),
+ stringsAsFactors = FALSE) > df name start end
1 TP53 7565097 7590856
2 TP63 189349205 189615068
3 TP73 3569084 3652765 > circos.genomicInitialize(df) > circos.clear() >
circos.genomicInitialize(df, major.by = 10000) Error in seq.default(xlim[1],
10^nchar(round(max(x2 - x1 + 1))), by =
major.by) : wrong sign in 'by' argument === And my session information: >
sessionInfo() R version 3.1.1 (2014-07-10)
Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.utf8
LC_NUMERIC=C [3] LC_TIME=en_US.utf8 LC_COLLATE=C [5]
LC_MONETARY=en_US.utf8 LC_MESSAGES=en_US.utf8 [7] LC_PAPER=en_US.utf8
LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.utf8 LC_IDENTIFICATION=C attached base packages:
[1] stats graphics grDevices utils datasets methods base other
attached packages:
[1] circlize_0.1.0 loaded via a namespace (and not attached): [1]
AnnotationDbi_1.26.0 Biobase_2.24.0 BiocGenerics_0.10.0 [4]
DBI_0.2-7 DESeq2_1.4.5 GenomeInfoDb_1.0.2 [7]
GenomicRanges_1.16.3 IRanges_1.22.9 RColorBrewer_1.0-5
[10] RSQLite_0.11.4 Rcpp_0.11.2 RcppArmadillo_0.4.320.0
[13] XML_3.98-1.1 XVector_0.4.0 annotate_1.42.1
[16] genefilter_1.46.1 geneplotter_1.42.0 grid_3.1.1
[19] lattice_0.20-29 locfit_1.5-9.1 parallel_3.1.1
[22] splines_3.1.1 stats4_3.1.1 survival_2.37-7
[25] xtable_1.7-3 > ===
Wonder anyone could please help me out with this?
Thank you very much for your time.:)
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