Thanks, Michael! Would you recommend RangedDataList over list(peaks1, peaks2)? Thanks!
Best, Julie On 3/17/10 12:12 PM, "Michael Lawrence" <[email protected]> wrote: RangedData is a vector or list-like object, so concatenating will behave as with other such objects. There is however a RangedDataList. Try RangedDataList(peaks1, peaks2). Michael On Wed, Mar 17, 2010 at 10:00 AM, Zhu, Julie <[email protected]> wrote: Hi, I want to pass in a vector of RangedData to a function. But the vector became one combined RangedData. Here is an example with two RangedData. peaks1= RangedData(IRanges(start = c(967654, 2010897, 2496704), end = c(967754, 2010997, 2496804), names = c("Site1", "Site2", "Site3")), space = c("1", "2", "3"), strand=as.integer(1)) peaks2 = RangedData(IRanges(start = c(967659, 2010898, 2496700, 3075866, 3123260), end = c(967869, 2011108, 2496920, 3076166, 3123470), names = c("t1", "t2", "t3", "t4", "t5")), space = c("1", "2", "3", "1", "2"), strand = c(1, 1, -1,-1,1)) Peaks=c(peaks1,peaks2) Now Peaks become one RangedData. Is there a way to create a vector of RangedData without combining all the RangedData into one? Thanks! RangedData with 10 rows and 1 value column across 4 spaces space ranges | strand <character> <IRanges> | <integer> p5 5 [167889600, 167893599] | 1 p1 6 [ 1543200, 1555199] | 1 p2 6 [ 1557200, 1560599] | 1 p3 6 [ 1563000, 1565199] | 1 p4 6 [ 1569800, 1573799] | 1 f5 5 [167888600, 167888999] | 1 f1 6 [ 1549800, 1550599] | 1 f2 6 [ 1554400, 1560799] | 1 f3 6 [ 1565000, 1565399] | 1 f4 6 [ 1569400, 1571199] | 1 Here is the session information. 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] stats graphics grDevices utils datasets methods base other attached packages: [1] ChIPpeakAnno_1.2.8 limma_2.19.2 org.Hs.eg.db_2.3.6 [4] GO.db_2.3.5 RSQLite_0.7-1 DBI_0.2-4 [7] AnnotationDbi_1.8.1 BSgenome.Ecoli.NCBI.20080805_1.3.16 BSgenome_1.14.2 [10] Biostrings_2.14.8 IRanges_1.4.9 multtest_2.1.2 [13] Biobase_2.5.5 biomaRt_2.1.0 loaded via a namespace (and not attached): [1] MASS_7.3-3 RCurl_0.98-1 splines_2.10.0 survival_2.35-7 tools_2.10.0 XML_2.3-0 Best regards, Julie ******************************************* 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 ******************************************* [[alternative HTML version deleted]] _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
