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gapss3.dot 11.59 KiB
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"000.MC0184ACXX_s_1_1_sequence.part" 
"all" 
"MC0184ACXX_s_1.sorted.dedup.bam.pileup" 
"create_report" 
".SECONDARY" 
"MC0184ACXX_s_1.xysome.targeted.avg-cov" 
"MC0184ACXX_s_1.asome_cutoff.vcf" 
"MC0184ACXX_s_1.asomes_cutoff_steepcov.bed" 
"MC0184ACXX_s_1_1_sequence.filtered" 
"MC0184ACXX_s_1.final.snponly.vcf" 
"Makefile" 
"MC0184ACXX_s_1.sorted.dedup.bam.flagstat" 
"MC0184ACXX_s_1.bcf" 
"MC0184ACXX_s_1_1_sequence.txt.recaldata" 
"MC0184ACXX_s_1.h_cov" 
"MC0184ACXX_s_1.xysome.vcf" 
"MC0184ACXX_s_1.covPerTarget" 
"MC0184ACXX_s_1.asomes_cnvhigh.bed" 
"/sureselect_whole_exome_v2.hg19.CBR.bed" 
"MC0184ACXX_s_1.mincov.bed" 
"MC0184ACXX_s_1.final.vcf" 
"MC0184ACXX_s_1.parts" 
"MC0184ACXX_s_1.sorted.dedup.bam.sorted.bam" 
"MC0184ACXX_s_1.loose-ontarget.bam.flagstat" 
"H.Sapiens/hg19/reference.fa" 
"MC0184ACXX_s_1.mtdna.vcf" 
"MC0184ACXX_s_1.xysomes_avgcov.bed" 
"MC0184ACXX_s_1_1_sequence.part000" 
".SUFFIXES" 
".DEFAULT" 
"MC0184ACXX_s_1.pileup" 
"MC0184ACXX_s_1.bases.strong-ontarget" 
"MC0184ACXX_s_1.final.indelonly.vcf" 
"MC0184ACXX_s_1_2_sequence.part000" 
"MC0184ACXX_s_1.strong-ontarget.bam.flagstat" 
"MC0184ACXX_s_1_2_sequence.sync" 
"MC0184ACXX_s_1.asome.vcf" 
"MC0184ACXX_s_1_1_sequence.filtered_fastqc" 
"MC0184ACXX_s_1.asome.targeted.avg-cov" 
"/sureselect_whole_exome_v2.hg19.CBR.bed.interval" 
"MC0184ACXX_s_1_1_sequence.txt" 
"MC0184ACXX_s_1.readsPerChr" 
"MC0184ACXX_s_1.xysomes_mincov.bed" 
"MC0184ACXX_s_1.final.vcf.vdb_annotation" 
"MC0184ACXX_s_1.xysomes_cnvhigh.bed" 
"MC0184ACXX_s_1.hsMetrics" 
"MC0184ACXX_s_1_2_sequence.txt" 
"MC0184ACXX_s_1.insertSizes" 
"MC0184ACXX_s_1.bases.aligned" 
"MC0184ACXX_s_1_1_sequence_fastqc" 
"MC0184ACXX_s_1_2_sequence.trimmed" 
"MC0184ACXX_s_1.wig" 
"MC0184ACXX_s_1.mtdna_cutoff.vcf" 
"MC0184ACXX_s_1.sorted.dedup.bam.parts" 
"MC0184ACXX_s_1.final.vcf.ti-tv" 
"MC0184ACXX_s_1.xysomes_cutoff_steepcov.bed" 
"MC0184ACXX_s_1.sorted.dedup.bam.bai" 
"MC0184ACXX_s_1.asomes_mincov.bed" 
"MC0184ACXX_s_1_2_sequence.filtered_fastqc" 
"MC0184ACXX_s_1.sorted.bam" 
"MC0184ACXX_s_1.xysome_cutoff.vcf" 
"MC0184ACXX_s_1.sorted.dedup.bam" 
"MC0184ACXX_s_1.insertSizesHist.pdf" 
"recursive" 
"MC0184ACXX_s_1.final.indelonly.vcf.annotation" 
"MC0184ACXX_s_1.final.snponly.vcf.annotation" 
"MC0184ACXX_s_1_1_sequence.trimmed" 
"MC0184ACXX_s_1.sorted.dedup.bam.sorted.dedup.bam" 
"MC0184ACXX_s_1_1_sequence.sync" 
"000.MC0184ACXX_s_1_2_sequence.part" 
"MC0184ACXX_s_1.bases.loose-ontarget" 
"MC0184ACXX_s_1.tar.gz" 
"MC0184ACXX_s_1.mtdna_mincov.bed" 
"clean" 
"MC0184ACXX_s_1_2_sequence_fastqc" 
"MC0184ACXX_s_1_2_sequence.filtered" 
"MC0184ACXX_s_1_2_sequence.txt.recaldata" 
"MC0184ACXX_s_1.asomes_avgcov.bed" 
;
"000.MC0184ACXX_s_1_1_sequence.part" -> "MC0184ACXX_s_1_1_sequence.part000"
"all" -> "MC0184ACXX_s_1.sorted.dedup.bam.bai"
"all" -> "MC0184ACXX_s_1.sorted.dedup.bam.flagstat"
"all" -> "MC0184ACXX_s_1.pileup"
"all" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"all" -> "MC0184ACXX_s_1.wig"
"all" -> "MC0184ACXX_s_1_1_sequence_fastqc"
"all" -> "MC0184ACXX_s_1_2_sequence_fastqc"
"all" -> "MC0184ACXX_s_1_1_sequence.filtered_fastqc"
"all" -> "MC0184ACXX_s_1_2_sequence.filtered_fastqc"
"all" -> "MC0184ACXX_s_1.mtdna_mincov.bed"
"all" -> "MC0184ACXX_s_1.asomes_avgcov.bed"
"all" -> "MC0184ACXX_s_1.asomes_cnvhigh.bed"
"all" -> "MC0184ACXX_s_1.xysomes_avgcov.bed"
"all" -> "MC0184ACXX_s_1.xysomes_cnvhigh.bed"
"all" -> "MC0184ACXX_s_1.h_cov"
"all" -> "MC0184ACXX_s_1.bases.strong-ontarget"
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"all" -> "MC0184ACXX_s_1.bcf"
"all" -> "MC0184ACXX_s_1.asome_cutoff.vcf"
"all" -> "MC0184ACXX_s_1.xysome_cutoff.vcf"
"all" -> "MC0184ACXX_s_1.mtdna_cutoff.vcf"
"all" -> "MC0184ACXX_s_1.xysome.targeted.avg-cov"
"all" -> "MC0184ACXX_s_1.asome.targeted.avg-cov"
"all" -> "MC0184ACXX_s_1.asome.vcf"
"all" -> "MC0184ACXX_s_1.xysome.vcf"
"all" -> "MC0184ACXX_s_1.final.vcf"
"all" -> "MC0184ACXX_s_1.final.snponly.vcf.annotation"
"all" -> "MC0184ACXX_s_1.final.indelonly.vcf.annotation"
"all" -> "MC0184ACXX_s_1.final.vcf.vdb_annotation"
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"all" -> "MC0184ACXX_s_1.tar.gz"
"all" -> "MC0184ACXX_s_1.hsMetrics"
"all" -> "MC0184ACXX_s_1.covPerTarget"
"all" -> "MC0184ACXX_s_1.insertSizes"
"all" -> "MC0184ACXX_s_1.insertSizesHist.pdf"
"all" -> "MC0184ACXX_s_1.readsPerChr"
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"MC0184ACXX_s_1.xysome.targeted.avg-cov" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.xysome.targeted.avg-cov" -> "/sureselect_whole_exome_v2.hg19.CBR.bed"
"MC0184ACXX_s_1.xysome.targeted.avg-cov" -> "H.Sapiens/hg19/reference.fa"
"MC0184ACXX_s_1.asome_cutoff.vcf" -> "MC0184ACXX_s_1.bcf"
"MC0184ACXX_s_1.asome_cutoff.vcf" -> "MC0184ACXX_s_1.asome.targeted.avg-cov"
"MC0184ACXX_s_1.asomes_cutoff_steepcov.bed" -> "MC0184ACXX_s_1.wig"
"MC0184ACXX_s_1.asomes_cutoff_steepcov.bed" -> "MC0184ACXX_s_1.asome.targeted.avg-cov"
"MC0184ACXX_s_1_1_sequence.filtered" -> "MC0184ACXX_s_1_1_sequence.trimmed"
"MC0184ACXX_s_1.final.snponly.vcf" -> "MC0184ACXX_s_1.final.vcf"
"MC0184ACXX_s_1.sorted.dedup.bam.flagstat" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.bcf" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1_1_sequence.txt.recaldata" -> "MC0184ACXX_s_1_1_sequence.txt"
"MC0184ACXX_s_1_1_sequence.txt.recaldata" -> "MC0184ACXX_s_1_2_sequence.txt"
"MC0184ACXX_s_1.h_cov" -> "MC0184ACXX_s_1.asomes_avgcov.bed"
"MC0184ACXX_s_1.h_cov" -> "MC0184ACXX_s_1.xysomes_avgcov.bed"
"MC0184ACXX_s_1.h_cov" -> "MC0184ACXX_s_1.mtdna_mincov.bed"
"MC0184ACXX_s_1.xysome.vcf" -> "MC0184ACXX_s_1.xysome_cutoff.vcf"
"MC0184ACXX_s_1.covPerTarget" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.covPerTarget" -> "/sureselect_whole_exome_v2.hg19.CBR.bed.interval"
"MC0184ACXX_s_1.asomes_cnvhigh.bed" -> "MC0184ACXX_s_1.asomes_cutoff_steepcov.bed"
"MC0184ACXX_s_1.mincov.bed" -> "MC0184ACXX_s_1.wig"
"MC0184ACXX_s_1.final.vcf" -> "MC0184ACXX_s_1.asome.vcf"
"MC0184ACXX_s_1.final.vcf" -> "MC0184ACXX_s_1.xysome.vcf"
"MC0184ACXX_s_1.final.vcf" -> "MC0184ACXX_s_1.mtdna.vcf"
"MC0184ACXX_s_1.parts" -> "000.MC0184ACXX_s_1_1_sequence.part"
"MC0184ACXX_s_1.parts" -> "000.MC0184ACXX_s_1_2_sequence.part"
"MC0184ACXX_s_1.sorted.dedup.bam.sorted.bam" -> "MC0184ACXX_s_1.sorted.dedup.bam.parts"
"MC0184ACXX_s_1.loose-ontarget.bam.flagstat" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.loose-ontarget.bam.flagstat" -> "/sureselect_whole_exome_v2.hg19.CBR.bed"
"MC0184ACXX_s_1.mtdna.vcf" -> "MC0184ACXX_s_1.mtdna_cutoff.vcf"
"MC0184ACXX_s_1.xysomes_avgcov.bed" -> "MC0184ACXX_s_1.xysomes_mincov.bed"
"MC0184ACXX_s_1.xysomes_avgcov.bed" -> "MC0184ACXX_s_1.xysomes_cnvhigh.bed"
"MC0184ACXX_s_1_1_sequence.part000" -> "MC0184ACXX_s_1_1_sequence.sync"
"MC0184ACXX_s_1.pileup" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.bases.strong-ontarget" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.bases.strong-ontarget" -> "/sureselect_whole_exome_v2.hg19.CBR.bed"
"MC0184ACXX_s_1.final.indelonly.vcf" -> "MC0184ACXX_s_1.final.vcf"
"MC0184ACXX_s_1_2_sequence.part000" -> "MC0184ACXX_s_1_2_sequence.sync"
"MC0184ACXX_s_1.strong-ontarget.bam.flagstat" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.strong-ontarget.bam.flagstat" -> "/sureselect_whole_exome_v2.hg19.CBR.bed"
"MC0184ACXX_s_1_2_sequence.sync" -> "MC0184ACXX_s_1_1_sequence.txt"
"MC0184ACXX_s_1_2_sequence.sync" -> "MC0184ACXX_s_1_1_sequence.filtered"
"MC0184ACXX_s_1_2_sequence.sync" -> "MC0184ACXX_s_1_2_sequence.filtered"
"MC0184ACXX_s_1.asome.vcf" -> "MC0184ACXX_s_1.asome_cutoff.vcf"
"MC0184ACXX_s_1_1_sequence.filtered_fastqc" -> "MC0184ACXX_s_1_1_sequence.filtered"
"MC0184ACXX_s_1.asome.targeted.avg-cov" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.asome.targeted.avg-cov" -> "/sureselect_whole_exome_v2.hg19.CBR.bed"
"MC0184ACXX_s_1.asome.targeted.avg-cov" -> "H.Sapiens/hg19/reference.fa"
"MC0184ACXX_s_1.readsPerChr" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.xysomes_mincov.bed" -> "MC0184ACXX_s_1.mincov.bed"
"MC0184ACXX_s_1.final.vcf.vdb_annotation" -> "MC0184ACXX_s_1.final.vcf"
"MC0184ACXX_s_1.xysomes_cnvhigh.bed" -> "MC0184ACXX_s_1.xysomes_cutoff_steepcov.bed"
"MC0184ACXX_s_1.hsMetrics" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.hsMetrics" -> "/sureselect_whole_exome_v2.hg19.CBR.bed.interval"
"MC0184ACXX_s_1.insertSizes" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.bases.aligned" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1_1_sequence_fastqc" -> "MC0184ACXX_s_1_1_sequence.txt"
"MC0184ACXX_s_1_2_sequence.trimmed" -> "MC0184ACXX_s_1_2_sequence.txt"
"MC0184ACXX_s_1.wig" -> "MC0184ACXX_s_1.sorted.dedup.bam.pileup"
"MC0184ACXX_s_1.mtdna_cutoff.vcf" -> "MC0184ACXX_s_1.bcf"
"MC0184ACXX_s_1.sorted.dedup.bam.parts" -> "000.MC0184ACXX_s_1_1_sequence.part"
"MC0184ACXX_s_1.sorted.dedup.bam.parts" -> "000.MC0184ACXX_s_1_2_sequence.part"
"MC0184ACXX_s_1.final.vcf.ti-tv" -> "MC0184ACXX_s_1.final.vcf"
"MC0184ACXX_s_1.xysomes_cutoff_steepcov.bed" -> "MC0184ACXX_s_1.wig"
"MC0184ACXX_s_1.xysomes_cutoff_steepcov.bed" -> "MC0184ACXX_s_1.xysome.targeted.avg-cov"
"MC0184ACXX_s_1.sorted.dedup.bam.bai" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.asomes_mincov.bed" -> "MC0184ACXX_s_1.mincov.bed"
"MC0184ACXX_s_1_2_sequence.filtered_fastqc" -> "MC0184ACXX_s_1_2_sequence.filtered"
"MC0184ACXX_s_1.sorted.bam" -> "MC0184ACXX_s_1.parts"
"MC0184ACXX_s_1.xysome_cutoff.vcf" -> "MC0184ACXX_s_1.bcf"
"MC0184ACXX_s_1.xysome_cutoff.vcf" -> "MC0184ACXX_s_1.xysome.targeted.avg-cov"
"MC0184ACXX_s_1.sorted.dedup.bam" -> "MC0184ACXX_s_1.sorted.bam"
"MC0184ACXX_s_1.insertSizesHist.pdf" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.final.indelonly.vcf.annotation" -> "MC0184ACXX_s_1.final.indelonly.vcf"
"MC0184ACXX_s_1.final.snponly.vcf.annotation" -> "MC0184ACXX_s_1.final.snponly.vcf"
"MC0184ACXX_s_1_1_sequence.trimmed" -> "MC0184ACXX_s_1_1_sequence.txt"
"MC0184ACXX_s_1.sorted.dedup.bam.sorted.dedup.bam" -> "MC0184ACXX_s_1.sorted.dedup.bam.sorted.bam"
"MC0184ACXX_s_1_1_sequence.sync" -> "MC0184ACXX_s_1_1_sequence.txt"
"MC0184ACXX_s_1_1_sequence.sync" -> "MC0184ACXX_s_1_1_sequence.filtered"
"MC0184ACXX_s_1_1_sequence.sync" -> "MC0184ACXX_s_1_2_sequence.filtered"
"000.MC0184ACXX_s_1_2_sequence.part" -> "MC0184ACXX_s_1_2_sequence.part000"
"MC0184ACXX_s_1.bases.loose-ontarget" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.bases.loose-ontarget" -> "/sureselect_whole_exome_v2.hg19.CBR.bed"
"MC0184ACXX_s_1.tar.gz" -> "MC0184ACXX_s_1.sorted.dedup.bam"
"MC0184ACXX_s_1.tar.gz" -> "MC0184ACXX_s_1.final.vcf"
"MC0184ACXX_s_1.tar.gz" -> "MC0184ACXX_s_1.asomes_avgcov.bed"
"MC0184ACXX_s_1.tar.gz" -> "MC0184ACXX_s_1.asomes_cnvhigh.bed"
"MC0184ACXX_s_1.tar.gz" -> "MC0184ACXX_s_1.xysomes_avgcov.bed"
"MC0184ACXX_s_1.tar.gz" -> "MC0184ACXX_s_1.xysomes_cnvhigh.bed"
"MC0184ACXX_s_1.mtdna_mincov.bed" -> "MC0184ACXX_s_1.mincov.bed"
"MC0184ACXX_s_1_2_sequence_fastqc" -> "MC0184ACXX_s_1_2_sequence.txt"
"MC0184ACXX_s_1_2_sequence.filtered" -> "MC0184ACXX_s_1_2_sequence.trimmed"
"MC0184ACXX_s_1_2_sequence.txt.recaldata" -> "MC0184ACXX_s_1_1_sequence.txt"
"MC0184ACXX_s_1_2_sequence.txt.recaldata" -> "MC0184ACXX_s_1_2_sequence.txt"
"MC0184ACXX_s_1.asomes_avgcov.bed" -> "MC0184ACXX_s_1.asomes_mincov.bed"
"MC0184ACXX_s_1.asomes_avgcov.bed" -> "MC0184ACXX_s_1.asomes_cnvhigh.bed"
}