Entering edit mode
10.7 years ago
joanne.lee
•
0
Hi,
I've downloaded the recent Cygwin version 1.7.24 and an trying to run bedTools but I get an empty file as my output. When I run the same commandline and files on a colleagues computer also through Cygwin I get a file containing the overlaps I seek. is the new Cygwin not compatable with BedTools? I've put the command line we used below:
./intersectbed -a Gene_body.bed -b EdgeR1.bed -wao > yyy.temp
Any help would be appreciated.
Thanks. Bedtools wasn't installed properly with the GCC compiler and the new commandline is: ./bedtools intersect Not what I was trying.