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ZainabKamel / NGS2-Project

This project is submitted in a partial fulfillment of the requirment of CIT-659 "NGS2" course for Nile University
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Error with r script #9

Open DrHudaAbuBakr opened 4 years ago

DrHudaAbuBakr commented 4 years ago

As we have 2 replicates of control and 2 replicates of treated group : cat simple_counts.txt | Rscript deseq1.r 2x2 > results_deseq1.tsv error: results_deseq1.tsv is 0 bytes the error 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 objects are masked from ‘package:stats’:

IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

anyDuplicated, append, as.data.frame, basename, cbind, colnames,
dirname, do.call, duplicated, eval, evalq, Filter, Find, get, grep,
grepl, intersect, is.unsorted, lapply, Map, mapply, match, mget,
order, paste, pmax, pmax.int, pmin, pmin.int, Position, rank,
rbind, Reduce, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unsplit, which, which.max, which.min

Loading required package: Biobase Welcome to Bioconductor

Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: locfit locfit 1.5-9.1 2013-03-22 Loading required package: lattice Welcome to 'DESeq'. For improved performance, usability and functionality, please consider migrating to 'DESeq2'. Error in newCountDataSet(counts, conditions) : length(conditions) == ncol(countData) is not TRUE Calls: newCountDataSet -> stopifnot Execution halted