I am creating the tagdirectories using Homer but can't get it to find the installed genome.
I am running
makeTagDirectory $tagdirname/$filename_tagDir -format HiCsummary $filename_Summary.txt -illuminaPE -removePEbg -restrictionSite GATC -genome mm10 -tbp 1
But get the error
!!! Could not find genome "mm10" !!! Available Genomes: Name Description !!! No available genomes (run configureHomer.pl to load some) !!!
I have ran
configureHomer.pl -install mm10 from my home folder, and the folder where the script is ran. Note that
.bash_profile contains the path to
/homer/. When I ran
perl configureHomer.pl -list it shows that
mm10 is installed under GENOMES, and
mouse-o under ORGANISMS.
Anyone help please? Thanks in advance