Mercurial > repos > brasset_jensen > srnapipe
comparison bin/sRNAPipe.pl @ 23:6669c4f79cac draft
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author | brasset_jensen |
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date | Sun, 13 May 2018 15:46:36 -0400 |
parents | b80aa719069f |
children | 54cb93674556 |
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22:59c728d31244 | 23:6669c4f79cac |
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10 use lib $FindBin::Bin; | 10 use lib $FindBin::Bin; |
11 use resize qw ( size_distribution ); | 11 use resize qw ( size_distribution ); |
12 use subgroups qw (subgroups ); | 12 use subgroups qw (subgroups ); |
13 use ppp qw ( ping_pong_partners ); | 13 use ppp qw ( ping_pong_partners ); |
14 use Rcall qw (pie_chart bg_to_png ); | 14 use Rcall qw (pie_chart bg_to_png ); |
15 use align qw ( to_build get_unique sam_count sam_count_mis sam_sorted_bam rpms_rpkm BWA_call get_fastq_seq extract_sam sam_to_bam_bg ); | 15 use align qw ( to_build get_unique sam_count sam_count_mis sam_sorted_bam rpms_rpkm rpms_rpkm_te BWA_call get_fastq_seq extract_sam sam_to_bam_bg ); |
16 use html qw ( main_page details_pages menu_page ppp_page ); | 16 use html qw ( main_page details_pages menu_page ppp_page ); |
17 use File::Copy; | 17 use File::Copy; |
18 | 18 |
19 my ( @fastq, @fastq_n, $dir, $min, $max, $mis, $misTE, $help, $Pcheck, $mapnumf, $html_out); | 19 my ( @fastq, @fastq_n, $dir, $min, $max, $mis, $misTE, $help, $Pcheck, $mapnumf, $html_out); |
20 my ( $ref, $tRNAs, $rRNAs, $snRNAs, $miRNAs, $transcripts, $TE ); | 20 my ( $ref, $tRNAs, $rRNAs, $snRNAs, $miRNAs, $transcripts, $TE ); |