diff --git a/README.org b/README.org index 964bb466c032c81023c64471f31f8c7a14204ce2..06b9fd789b83db4635a05c0ce3d5c38bdd80740d 100644 --- a/README.org +++ b/README.org @@ -5,7 +5,8 @@ ** Prescreening 1. Generate prescreening data frames, #+BEGIN_SRC R - presc.do(list.files(patt=".*mzML"),"pH",fn_cmpd_list="./Pesticides.info.csv",proc=4) + presc.do(list.files(path="~/ECI_SCRATCH/20190627_HEROBER",patt=".*.mzML",full.names=T), + mode="pH",fn_cmpd_l="./cutlist.csv",proc=F,dest=".") #+END_SRC This is to be carried out inside the directory containing the ~mzML~ files. For sequential execution, leave out the ~proc~ @@ -13,7 +14,7 @@ 2. Plot, #+BEGIN_SRC R require(rmbmix) - presc.plot(normalizePath(list.dirs(".",recursive=F,full.names=F))) + presc.plot(list.files(".",patt="2.*POS",include.dirs=T),cex=0.7,digits=4) #+END_SRC The only argument is a sequence of absolute paths to directories containing the prescreen data. The resulting plot file is going