Question: DEXSeq- ExonCountSet
5.0 years ago by
Anitha Sundararajan • 140
Anitha Sundararajan • 140 wrote:
Hi I am a new user to DEXSeq and I was wondering if I could get some help resolving an error message I repeatedly get. I have my sample table and it looks like: > sampleTable countFile condition meiocyte1 Col-meiocyte-1.counts meiocytes meiocyte2 Col-meiocyte-2.counts meiocytes seedling1 Col-seedling-1.counts seedlings seedling2 Col-seedling-2.counts seedlings anther1 Col-anther-1.counts anthers anther2 Col-anther-2.counts anthers I am trying to create the ExonCountSet and I am constantly getting this error: > ecs <- read.HTSeqCounts (sampleTable$countfile, sampleTable, "Arabidopsis_thaliana.modified.flattened.gff") Error: could not find function "read.HTSeqCounts" I even tried newExonCountSet (read that in a blog) and that didn't work either! My session Info is as given: > sessionInfo() R version 3.0.2 (2013-09-25) Platform: x86_64-unknown-linux-gnu (64-bit) locale:  LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C  LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8  LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8  LC_PAPER=en_US.UTF-8 LC_NAME=C  LC_ADDRESS=C LC_TELEPHONE=C  LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages:  parallel stats graphics grDevices utils datasets methods  base other attached packages:  Biobase_2.22.0 BiocGenerics_0.8.0 BiocInstaller_1.12.0 loaded via a namespace (and not attached):  hwriter_1.3 stringr_0.6.2 tools_3.0.2 Can you please give me any insight on what might be wrong. Thanks so much for your help in advance Anitha Sundararajan.
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