Hello everyone,
I'm trying to run DESeq2 package on R Studio under Wondows8 and I just can't do it right even if I've successfully used old version of DESeq under Linux...
So, I installed DESeq2 from biocLite, then i run
and got:
There are a bunch of "masked" objects... but no errors, so I assumed everything is okay. Now, I already have a HTSeq input table with 4 columns representing my conditions (2 wild type and 2 treated). Now, how the heck can I load this file to DESeq in order to analyze it? In the vignette, there is a section (I know...), but honestly I'm almost losing my hair by trying to make it work.
I tried to run the first line :
and got an immediate error :
Thank you guys in advance,
TP
I'm trying to run DESeq2 package on R Studio under Wondows8 and I just can't do it right even if I've successfully used old version of DESeq under Linux...
So, I installed DESeq2 from biocLite, then i run
Code:
require(DESeq2)
Code:
Loading required package: DESeq2 Loading required package: GenomicRanges Loading required package: BiocGenerics Loading required package: parallel Attaching package: ‘BiocGenerics’ The following objects are masked from ‘package:parallel’: clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following object is masked from ‘package:stats’: xtabs The following objects are masked from ‘package:base’: anyDuplicated, append, as.data.frame, as.vector, cbind, colnames, duplicated, eval, evalq, Filter, Find, get, intersect, is.unsorted, lapply, Map, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank, rbind, Reduce, rep.int, rownames, sapply, setdiff, sort, table, tapply, union, unique, unlist Loading required package: IRanges Loading required package: XVector Loading required package: Rcpp Loading required package: RcppArmadillo
I tried to run the first line :
Code:
directory <- system.file("extdata", package="HTSeqCountTable", mustWork=TRUE)
Code:
Error in system.file("extdata", package = "HTSeqCountTable", mustWork = TRUE) : no file found
TP
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