[BioC] Re: New versions of annotation data pacakges
John Zhang
jzhang at jimmy.harvard.edu
Thu Mar 11 15:10:57 MET 2004
New versions of annotation packages for chips are available for downloading in
the metaData section of Bioconductor.
NULL values in the GO environment are replaced by NA to make the multiget
function happy.
The XXXCHRLOC packages (e. g. humanCHRLOC) has a new environment called
XXXCHRLOCCYTOLOC that contains the physical location of cytobands on each
chromosome. Examples of usage of this environment are shown below:
> library(mouseCHRLOC)
> ls(mouseCHRLOCCYTOLOC)
[1] "1" "10" "11" "12" "13" "14" "15" "16" "17" "18" "19" "2" "3" "4" "5"
[16] "6" "7" "8" "9" "X" "Y"
> bandsOn1 <- get("1", mouseCHRLOCCYTOLOC)
> names(bandsOn1)
[1] "qA1" "p" "qA2" "qA3" "qA4" "qA5" "qB" "qC1.1" "qC1.2"
[10] "qC1.3" "qC2" "qC3" "qC4" "qC5" "qD" "qE1.1" "qE1.2" "qE2.1"
[19] "qE2.2" "qE2.3" "qE3" "qE4" "qF" "qG1" "qG2" "qG3" "qH1"
[28] "qH2.1" "qH2.2" "qH2.3" "qH2.3" "qH3" "qH4" "qH5" "qH6"
> bandsOn1[["qA1"]]
Start End
0 1476405
> bandsOn1[["qE4"]]
Start End
128939338 139766306
For R 1.9.0
> mouseCHRLOCCYTOLOC[["1"]][["qA1"]]
Start End
0 1476405
> mouseCHRLOCCYTOLOC[["1"]][["qE4"]]
Start End
128939338 139766306
Please let me know if you have any concerns. Thanks.
Jianhua
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