This function splits a GFF file into multiple GFFs including data for exactly one scaffold each.
the basepath of the GFF file
name of the folder where the GFFs should be stored
The algorithm splits the GFF into multiple scaffold based GFFs and
stores the files in a given folder. This folder can be used as an input for readData(,gffpath="")
# GFF_split_into_scaffolds("GFFfile.gff","scaffoldGFFs") # test <- readData("scaffoldVCFs", format="VCF", gffpath="scaffoldGFFs")
Loading required package: ff Loading required package: bit Attaching package bit package:bit (c) 2008-2012 Jens Oehlschlaegel (GPL-2) creators: bit bitwhich coercion: as.logical as.integer as.bit as.bitwhich which operator: ! & | xor != == querying: print length any all min max range sum summary bit access: length<- [ [<- [[ [[<- for more help type ?bit Attaching package: 'bit' The following object is masked from 'package:base': xor Attaching package ff - getOption("fftempdir")=="/work/tmp/tmp/RtmpFKYWu8" - getOption("ffextension")=="ff" - getOption("ffdrop")==TRUE - getOption("fffinonexit")==TRUE - getOption("ffpagesize")==65536 - getOption("ffcaching")=="mmnoflush" -- consider "ffeachflush" if your system stalls on large writes - getOption("ffbatchbytes")==16777216 -- consider a different value for tuning your system - getOption("ffmaxbytes")==536870912 -- consider a different value for tuning your system Attaching package: 'ff' The following objects are masked from 'package:bit': clone, clone.default, clone.list The following objects are masked from 'package:utils': write.csv, write.csv2 The following objects are masked from 'package:base': is.factor, is.ordered
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