hi everyone i have a problem with running CNV-seq software in cygwin i have two files (as sample downloaded from http://tiger.dbs.nus.edu.sg/cnv-seq/) and try to run cnv-seq for first time but when enter this command:
$ ./cnv-seq.pl --test test.hits --ref ref.hits --genome chrom1 --log2 0.6 --p 0.001 --bigger-window 1.5 --annotate --minimum-windows 4
then i received below result and error:
genome size used for calculation is 247249719 test.hits: 1874797 reads ref.hits: 1878852 reads sh: R: command not found Error: can not find program R at ./cnv-seq.pl line 117.
it should be note that i installed R software previously. where is the my mistake?
thanks in advance