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, 13:54, 9 March 2011
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| ${BIN}/samtools-hybrid view ${OUT}/NA12878.exon-targetted.ILLUMINA.chr20.19986kb-20281kb.deduped.bam | less | | ${BIN}/samtools-hybrid view ${OUT}/NA12878.exon-targetted.ILLUMINA.chr20.19986kb-20281kb.deduped.bam | less |
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| + | TYPE 'q' to finish |
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| 7. INDEX THE ALIGNMENT FOR RANDOM ACCESS OF THE BAM | | 7. INDEX THE ALIGNMENT FOR RANDOM ACCESS OF THE BAM |
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| ${BIN}/samtools-hybrid glfview ${OUT}/NA12878.exon-targetted.ILLUMINA.chr20.19986kb-20281kb.glf | less | | ${BIN}/samtools-hybrid glfview ${OUT}/NA12878.exon-targetted.ILLUMINA.chr20.19986kb-20281kb.glf | less |
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| + | TYPE 'q' to finish |
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| 10. SINGLE-SAMPLE GENOTYPE CALLING using GLFSINGLE | | 10. SINGLE-SAMPLE GENOTYPE CALLING using GLFSINGLE |
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| less ${OUT}/NA12878.exon-targetted.ILLUMINA.chr20.19986kb-20281kb.vcf | | less ${OUT}/NA12878.exon-targetted.ILLUMINA.chr20.19986kb-20281kb.vcf |
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| + | TYPE 'q' to finish |
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| 11. COMPUTE THE GENOTYPE LIKELIHOOD OF HIGH-COVERAGE DATA | | 11. COMPUTE THE GENOTYPE LIKELIHOOD OF HIGH-COVERAGE DATA |
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| less ${OUT}/NA12878.high_coverage.ILLUMINA.chr20.19986kb-20281kb.vcf | | less ${OUT}/NA12878.high_coverage.ILLUMINA.chr20.19986kb-20281kb.vcf |
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| + | TYPE 'q' to finish |
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| 13. COUNT NUMBER OF SNPs and OVERLAPS | | 13. COUNT NUMBER OF SNPs and OVERLAPS |