hallo everybody, I have a problem with qaProcess.marginevents() function from flowQ package I'm following the example > library(flowQ) > data(GvHD) > dest<- tempdir() > qp<- qaProcess.marginevents(GvHD, channels=c("FSC-H", "SSC-H"), outdir=dest) that I got trying > ?qaProcess.marginevents but the command > qp<- qaProcess.marginevents(GvHD, channels=c("FSC-H", "SSC-H"), outdir=dest) follows to the error message: computing margin events...Error: no se pudo encontrar la funci?n "boundaryFilter" Error en filter(set, boundaryFilter(x, side = side)) : error in evaluating the argument 'filter' in selecting a method for function 'filter' and I have no idea how to deal with this error.I will be very thankful if you could help me to solve this problem. Best wishes, Ewelina Bakala > sessionInfo() R version 2.10.0 (2009-10-26) i686-pc-linux-gnu locale: [1] LC_CTYPE=es_ES.UTF-8 LC_NUMERIC=C [3] LC_TIME=es_ES.UTF-8 LC_COLLATE=es_ES.UTF-8 [5] LC_MONETARY=C LC_MESSAGES=es_ES.UTF-8 [7] LC_PAPER=es_ES.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=es_ES.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] tools tcltk stats graphics grDevices utils datasets [8] methods base other attached packages: [1] flowQ_1.6.0 latticeExtra_0.6-4 RColorBrewer_1.0-2 parody_1.4.0 [5] bioDist_1.18.0 mvoutlier_1.4 flowViz_1.10.0 flowCore_1.8.3 [9] Biobase_2.6.0 feature_1.2.4 ks_1.6.8 rpanel_1.0-5 [13] KernSmooth_2.23-3 rrcov_1.0-00 pcaPP_1.7 mvtnorm_0.9-8 [17] robustbase_0.4-5 lattice_0.17-26 outliers_0.13-2 loaded via a namespace (and not attached): [1] annotate_1.24.0 AnnotationDbi_1.8.0 DBI_0.2-4 [4] geneplotter_1.24.0 graph_1.24.0 grid_2.10.0 [7] MASS_7.3-3 RSQLite_0.7-3 stats4_2.10.0 [10] xtable_1.5-5 >

Hi Ewelina, You are using the flowQ package (v 1.6.0) from the 2.5 Bioconductor release. However the flowCore package you are using seems to be an older version from the 2.3 release ( v 1.8.3). Perhaps updating your package dependencies might fix the issue. I would recommend updating all your packages to the 2.6 release of Bioconductor. Nishant On 06/02/2010 07:33 AM, Ewelina Bakala wrote: > hallo everybody, > I have a problem with qaProcess.marginevents() function from flowQ > package > I'm following the example > >> library(flowQ) >> data(GvHD) >> dest<- tempdir() >> qp<- qaProcess.marginevents(GvHD, channels=c("FSC-H", "SSC-H"), > outdir=dest) > > that I got trying >> ?qaProcess.marginevents > > but the command >> qp<- qaProcess.marginevents(GvHD, channels=c("FSC-H", "SSC-H"), > outdir=dest) > > follows to the error message: > computing margin events...Error: no se pudo encontrar la funci?n > "boundaryFilter" > Error en filter(set, boundaryFilter(x, side = side)) : > error in evaluating the argument 'filter' in selecting a method for > function 'filter' > > and I have no idea how to deal with this error.I will be very thankful > if you could help me to solve this problem. > > Best wishes, > Ewelina Bakala > > > > >> sessionInfo() > R version 2.10.0 (2009-10-26) > i686-pc-linux-gnu > > locale: > [1] LC_CTYPE=es_ES.UTF-8 LC_NUMERIC=C > [3] LC_TIME=es_ES.UTF-8 LC_COLLATE=es_ES.UTF-8 > [5] LC_MONETARY=C LC_MESSAGES=es_ES.UTF-8 > [7] LC_PAPER=es_ES.UTF-8 LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=es_ES.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] tools tcltk stats graphics grDevices utils datasets > [8] methods base > > other attached packages: > [1] flowQ_1.6.0 latticeExtra_0.6-4 RColorBrewer_1.0-2 > parody_1.4.0 > [5] bioDist_1.18.0 mvoutlier_1.4 flowViz_1.10.0 > flowCore_1.8.3 > [9] Biobase_2.6.0 feature_1.2.4 ks_1.6.8 > rpanel_1.0-5 > [13] KernSmooth_2.23-3 rrcov_1.0-00 pcaPP_1.7 > mvtnorm_0.9-8 > [17] robustbase_0.4-5 lattice_0.17-26 outliers_0.13-2 > > loaded via a namespace (and not attached): > [1] annotate_1.24.0 AnnotationDbi_1.8.0 DBI_0.2-4 > [4] geneplotter_1.24.0 graph_1.24.0 grid_2.10.0 > [7] MASS_7.3-3 RSQLite_0.7-3 stats4_2.10.0 > [10] xtable_1.5-5 >> > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor