Dear Simon Anders Greetings !! This is Vineeta Singh currently working on RNAseq data and got stuck in one error while using DEseq in estimateDispersion step error is given below . Its been wonderfull package but am unable to use it. Please help me in resolving this error. I tried giving method type, fitType, sharingMode but all options failed. This data is simulated one in which ???A??? type are created as replicate and same with???B??? type. -- output of sessionInfo(): Error in glm.fit(x = numeric(0), y = numeric(0), weights = NULL, start = c(0.1, : object 'fit' not found In addition: Warning messages: 1: In is.na(rows) : is.na() applied to non-(list or vector) of type 'NULL' 2: In glm.fit(x = numeric(0), y = numeric(0), weights = NULL, start = c(0.1, : no observations informative at iteration 1 3: glm.fit: algorithm did not converge > sessionInfo() R version 3.0.3 (2014-03-06) Platform: x86_64-w64-mingw32/x64 (64-bit) locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C LC_TIME=English_United States.1252 attached base packages: [1] parallel stats graphics grDevices utils datasets methods base other attached packages: [1] DESeq_1.14.0 lattice_0.20-29 locfit_1.5-9.1 Biobase_2.22.0 BiocGenerics_0.8.0 loaded via a namespace (and not attached): [1] annotate_1.40.1 AnnotationDbi_1.24.0 DBI_0.2-7 genefilter_1.44.0 geneplotter_1.40.0 [6] grid_3.0.3 IRanges_1.20.7 RColorBrewer_1.0-5 RSQLite_0.11.4 splines_3.0.3 [11] stats4_3.0.3 survival_2.37-7 tools_3.0.3 XML_3.98-1.1 xtable_1.7-3 -- Sent via the guest posting facility at bioconductor.org.

Hi On 21/05/14 12:27, Vineeta singh [guest] wrote: > Error in glm.fit(x = numeric(0), y = numeric(0), weights = NULL, start = c(0.1, : Please send us the complete code (all commands including output) that led to this error message. Cheers Simon