Hi,
I am trying to sort a RangedData but encountered the following error. Here
is a toy example to reproduce the error. Did I do something wrong? Thank you
very much for your help!
Best regards,
Julie
myPeak1 = RangedData(IRanges(start=c(967654, 2010897, 2496704, 3075869,
3123260 ,3857501,201089), end= c(967754, 2010997, 2496804, 3075969, 3123360
,3857601,201089),names=c("Site1", "Site2", "Site3", "Site4", "Site5",
"Site6", "site7")), space=c("1", "2", "3", "4", "5", "6","2"))
myPeak1[order(rownames(myPeak1)),]
Error in myPeak1[order(rownames(myPeak1)), ] :
cannot combine 'i' row values from different spaces
> sessionInfo()
R version 2.10.0 (2009-10-26)
i386-apple-darwin8.11.1
locale:
[1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] grid stats graphics grDevices utils datasets methods
base
other attached packages:
[1] Ringo_1.10.0 Matrix_0.999375-31
lattice_0.17-26
[4] limma_2.19.2 RColorBrewer_1.0-2
ChIPpeakAnno_1.2.4
[7] org.Hs.eg.db_2.3.6 GO.db_2.3.5
RSQLite_0.7-1
[10] DBI_0.2-4 AnnotationDbi_1.8.1
BSgenome.Ecoli.NCBI.20080805_1.3.16
[13] BSgenome_1.14.2 Biostrings_2.14.8
IRanges_1.4.9
[16] multtest_2.1.2 Biobase_2.5.5
biomaRt_2.1.0
loaded via a namespace (and not attached):
[1] annotate_1.23.1 genefilter_1.25.7 MASS_7.3-3 RCurl_0.98-1
splines_2.10.0 survival_2.35-7
[7] tools_2.10.0 XML_2.3-0 xtable_1.5-6
*******************************************
Lihua Julie Zhu, Ph.D
Research Associate Professor
Program Gene Function and Expression
University of Massachusetts Medical School
364 Plantation Street, Room 613
Worcester, MA 01605
508-856-5256
http://www.umassmed.edu/pgfe/faculty/zhu.cfm
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