Create_ensGene_Hg19_coding_exon_bed_track.txt

## Notes regarding creating ensGene Hg19 coding exon bed track
## The procedure will be replaced by script
## Jack Zhu, 03012015
#
# download ensGene Hg19 coding exon bed track from: http://genome.ucsc.edu/cgi-bin/hgTables
# created merged track by Galaxy
# coverted to gff format using Galaxy
# removed non-regular chromsomes using the following command

   grep -v "^chr[Un0-9XY]*_" enGene.cds.hg19.bed > enGene.cleaned.cds.hg19.bed

# sort the bed tracks using betools sort 

   bedtools sort -chrThenSizeA -i enGene.cleaned.cds.hg19.bed > enGene.cleaned.sorted.cds.hg19.bed