Dario, you should really report these issues directly to the package maintainer. At least cc them on posts like this.
Kasper On Thu, Jan 23, 2014 at 1:00 AM, Dario Strbenac <dstr7...@uni.sydney.edu.au>wrote: > Hello, > > In the documentation, it is described as : > > C1Mean The mean of each transcript within Condition 1 (adjusted by > normalization factors). > > C2Mean The mean of each transcript within Condition 2 (adjusted by > normalization factors). > > However, when I look at it : > > > str(test32vs24$C1Mean) > List of 3 > $ : Named num [1:43503] 0.301 2.078 6.217 3.035 0.239 ... > ..- attr(*, "names")= chr [1:43503] "comp10246_c0_seq1" > "comp102905_c0_seq1" "comp10314_c0_seq1" "comp10323_c0_seq1" ... > $ : Named num [1:28426] 2.99 1.62 2.61 0 0 ... > ..- attr(*, "names")= chr [1:28426] "comp10084_c0_seq1" > "comp10094_c0_seq1" "comp10154_c0_seq1" "comp10161_c0_seq1" ... > $ : Named num [1:118329] 2385.71 419.68 2926.13 7.39 6.39 ... > ..- attr(*, "names")= chr [1:118329] "comp139431_c0_seq1" > "comp139431_c0_seq2" "comp139431_c0_seq3" "comp156500_c0_seq1" ... > > Presumably, the data is split into the three lists because of NgVector. It > would be better if it was returned as one vector, in the same order as the > input data. That would make it consistent with how PostFC and GetPP > functions return their data. > > Hopefully in the future, there can be a topTable function, like in limma > and edgeR, that puts all of these results nicely into a data frame. > > -------------------------------------- > Dario Strbenac > PhD Student > University of Sydney > Camperdown NSW 2050 > Australia > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
