[BioC] Samr error message doubt

Henrique Proença henrique at est.ipcb.pt
Wed Oct 8 18:30:21 CEST 2008


Hi to all,

I was playing with samr, and I found out that when I try to apply it to 
some data with no variance, it always return the error message:

*"invalid number of intervals"*


example of the one dataset:

gene_name    gene_index    1    1
1    1    -0.719512126    -0.719512126
2    2    -1.2910361    -1.2910361
3    3    -2.503576664    -2.503576664
4    4    -2.595720177    -2.595720177
5    5    0.337146509    0.337146509
6    6    -0.336816551    -0.336816551
7    7    0.463494332    0.463494332
8    8    -0.143871617    -0.143871617
9    9    -0.75348224    -0.75348224
10    10    -0.418839064    -0.418839064



R version 2.7.0 (2008-04-22)
i386-pc-mingw32

locale:
LC_COLLATE=English_United States.1252;LC_CTYPE=English_United 
States.1252;LC_MONETARY=English_United 
States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252

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

other attached packages:
[1] samr_1.25                 impute_1.12.0       biomarkerDiscovery_0.0.18 annotate_1.18.0           xtable_1.5-2            
[6] topGO_1.8.1               SparseM_0.77        GO.db_2.2.0               AnnotationDbi_1.2.0       RSQLite_0.6-8           
[11] DBI_0.2-4                 graph_1.18.1       limma_2.14.1              affy_1.18.0               preprocessCore_1.2.0    
[16] affyio_1.8.0              Biobase_2.0.1           

loaded via a namespace (and not attached):
[1] cluster_1.11.10


Does any one know if the origin of the problem is the absence of variance?
Thanks in advance

Regards, 

Henrique Proença



More information about the Bioconductor mailing list