Hi, I am getting an error when trying to run plotMDS.dge in R_2.14: >pdf(file="no.Zero.MDS_plot.pdf") >plotMDS.dge(d5, main="MDS Plot for Data",xlim=c(-.8,.8), ylim=c(-.5,.5)) Error: could not find function "plotMDS.dge" Is there any known reason for this? I believe the devel version was installed on the cluster I am working on, and besides this all other commands are working. Bruce. ---------------------------------------------------------------------- -------- Attention: This e-mail is privileged and confidential. If you are not the intended recipient please delete the message and notify the sender. Any views or opinions presented are solely those of the author. This email was scanned by Teagasc and has been certified virus free with the pattern file currently in use. This however cannot guarantee that it does not contain malicious content. Tabhair aire: Ta an r-phost seo faoi phribhleid agus faoi run. Mura tusa an duine a bhi beartaithe leis an teachtaireacht seo a fhail, scrios e le do thoil agus cuir an seoltoir ar an eolas. Is leis an udar amhain aon dearcai no tuairimi a leiritear. Scanadh an r-phost seo le Teagasc agus deimhniodh go raibh se saor o vioras leis an bpatrunchomhad ata in usaid faoi lathair. Ni feidir a rathu leis seo afach nach bhfuil abhar mailiseach ann. [[alternative HTML version deleted]]

Bruce, The function name is now plotMDS in the latest version of edgeR (2.4.1). Wade -----Original Message----- From: Bruce Moran(External) [mailto:Bruce.Moran@teagasc.ie] Sent: Thursday, December 08, 2011 10:30 AM To: bioconductor at r-project.org Subject: [BioC] plotMDS.dge error Hi, I am getting an error when trying to run plotMDS.dge in R_2.14: >pdf(file="no.Zero.MDS_plot.pdf") >plotMDS.dge(d5, main="MDS Plot for Data",xlim=c(-.8,.8), ylim=c(-.5,.5)) Error: could not find function "plotMDS.dge" Is there any known reason for this? I believe the devel version was installed on the cluster I am working on, and besides this all other commands are working. Bruce. ---------------------------------------------------------------------- -------- Attention: This e-mail is privileged and confidential. If you are not the intended recipient please delete the message and notify the sender. Any views or opinions presented are solely those of the author. This email was scanned by Teagasc and has been certified virus free with the pattern file currently in use. This however cannot guarantee that it does not contain malicious content. Tabhair aire: Ta an r-phost seo faoi phribhleid agus faoi run. Mura tusa an duine a bhi beartaithe leis an teachtaireacht seo a fhail, scrios e le do thoil agus cuir an seoltoir ar an eolas. Is leis an udar amhain aon dearcai no tuairimi a leiritear. Scanadh an r-phost seo le Teagasc agus deimhniodh go raibh se saor o vioras leis an bpatrunchomhad ata in usaid faoi lathair. Ni feidir a rathu leis seo afach nach bhfuil abhar mailiseach ann. [[alternative HTML version deleted]]

Dear Bruce, The plotMDS function edgeR and been improved and simplified in edgeR so that you now just type: plotMDS(d5, etc) Best wishes Gordon > Date: Thu, 8 Dec 2011 16:30:09 -0000 > From: "Bruce Moran\(External\)" <bruce.moran at="" teagasc.ie=""> > To: <bioconductor at="" r-project.org=""> > Subject: [BioC] plotMDS.dge error > > Hi, > > > > I am getting an error when trying to run plotMDS.dge in R_2.14: > > > >> pdf(file="no.Zero.MDS_plot.pdf") > >> plotMDS.dge(d5, main="MDS Plot for Data",xlim=c(-.8,.8), > ylim=c(-.5,.5)) > > > > Error: could not find function "plotMDS.dge" > > > > Is there any known reason for this? I believe the devel version was > installed on the cluster I am working on, and besides this all other > commands are working. > > > > Bruce. ______________________________________________________________________ The information in this email is confidential and intend...{{dropped:4}}