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GP files (both intervals and single position files) can be compressed+indexed with [http://samtools.sourceforge.net/tabix.shtml tabix]. PileLine now supports this format as input for its commands.

'''NOTE: PileLine will recognize a input file as compressed if they have the .bgz extension.'''

== Compressing GP files with tabix ==
# Download tabix software from: [http://samtools.sourceforge.net/tabix.shtml http://samtools.sourceforge.net/tabix.shtml]
# Compress a file (for example a .bed)
 cat myfile.bed | bgzip > myfile.bed.bgz
 tabix -p bed myfile.bed.bgz
 #tabix has now created the myfile.bed.bgz.tbi, which is the index.