Created
May 24, 2015 02:27
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Fetch terminal genes C. elegans
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| end_dist=30000 | |
| chrom_I=15072434 | |
| chrom_II=15279421 | |
| chrom_III=13783801 | |
| chrom_IV=17493829 | |
| chrom_V=20924180 | |
| chrom_X=17718942 | |
| tabix gene.gff.gz I:1-$end_dist > terminal_genes.txt | |
| tabix gene.gff.gz II:1-$end_dist >> terminal_genes.txt | |
| tabix gene.gff.gz III:1-$end_dist >> terminal_genes.txt | |
| tabix gene.gff.gz IV:1-$end_dist >> terminal_genes.txt | |
| tabix gene.gff.gz V:1-$end_dist >> terminal_genes.txt | |
| tabix gene.gff.gz X:1-$end_dist >> terminal_genes.txt | |
| tabix gene.gff.gz I:`expr $chrom_I - $end_dist`-$chrom_I >> terminal_genes.txt | |
| tabix gene.gff.gz I:`expr $chrom_II - $end_dist`-$chrom_II >> terminal_genes.txt | |
| tabix gene.gff.gz I:`expr $chrom_III - $end_dist`-$chrom_III >> terminal_genes.txt | |
| tabix gene.gff.gz I:`expr $chrom_IV - $end_dist`-$chrom_IV >> terminal_genes.txt | |
| tabix gene.gff.gz I:`expr $chrom_V - $end_dist`-$chrom_V >> terminal_genes.txt | |
| tabix gene.gff.gz I:`expr $chrom_X - $end_dist`-$chrom_X >> terminal_genes.txt | |
| cat terminal_genes.txt | grep 'Gene' | cut -f 9 | egrep -o 'Alias=([^,]+)' |
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