[BioC] info on vennCounts function

Alberto Goldoni alberto.goldoni1975 at gmail.com
Tue Jun 21 18:53:24 CEST 2011


Dear all,
i have a question on the "vennCounts" function.

Using this function on "results" value:

> vennCounts(results)
     [hda+str]-[ref] [ref+str]-[ref] [hda+str]-[ref+str] Counts
[1,]               0               0                   0             21496
[2,]               0               0                   1                0
[3,]               0               1                   0               12
[4,]               0               1                   1                  0
[5,]               1               0                   0                32
[6,]               1               0                   1                  1
[7,]               1               1                   0                34
[8,]               1               1                   1                 0
attr(,"class")
[1] "VennCounts"

what i shoul need is a way to understand which genes are in the [7,]
line from the  "[hda+str]-[ref] vs [ref+str]-[ref]".

The only think i know is the number that should be 34, but i would
like to obtain a list of the 34 genes.

best regards.

> sessionInfo()
R version 2.13.0 (2011-04-13)
Platform: x86_64-pc-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
 [5] LC_MONETARY=C              LC_MESSAGES=en_US.UTF-8
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] AnnotationDbi_1.14.1  Biobase_2.12.1        GenomicFeatures_1.4.2
[4] GenomicRanges_1.4.1   IRanges_1.10.0        limma_3.8.1
[7] biomaRt_2.8.0

loaded via a namespace (and not attached):
[1] Biostrings_2.20.0  BSgenome_1.20.0    DBI_0.2-5          RCurl_1.5-0
[5] RSQLite_0.9-4      rtracklayer_1.12.3 tools_2.13.0       XML_3.2-0

-- 
-----------------------------------------------------
Dr. Alberto Goldoni
Parma, Italy



More information about the Bioconductor mailing list