Hi List,

I'm trying to run an association analysis with GGTools. I'm getting an error
when I run:

> outData <- gwSnpTests(gs1~male, hapSmlSet)
Error in data.frame(get(pname), pData(sms)) :
arguments imply differing number of rows: 0, 87

There are 87 samples in my analysis so that explains that, but I don't know
what "get(pname)" is doing or why it is returning 0. I'm guessing I've
something missing somewhere in the data I've loaded.

I can provide more information if necessary.

Thanks,

Paul



R version 2.10.1 (2009-12-14)
x86_64-pc-linux-gnu

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

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

other attached packages:
 [1] org.Hs.eg.db_2.3.6  GGtools_3.4.0       rpart_3.1-46
 [4] Biostrings_2.14.0   IRanges_1.4.0       RColorBrewer_1.0-2
 [7] GGBase_3.6.0        RSQLite_0.8-0       DBI_0.2-5
[10] snpMatrix_1.10.3    survival_2.35-8     GSEABase_1.8.0
[13] graph_1.24.1        annotate_1.24.0     AnnotationDbi_1.8.0
[16] GEOquery_2.10.0     RCurl_1.3-0         bitops_1.0-4.1
[19] Biobase_2.6.0

loaded via a namespace (and not attached):
[1] annaffy_1.18.0 tcltk_2.10.1   tools_2.10.1   XML_2.6-0
xtable_1.5-6
>


-- 
Paul Geeleher
School of Mathematics, Statistics and Applied Mathematics
National University of Ireland
Galway
Ireland

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