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, 12:05, 26 June 2012
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| ./readCount --reference hg19.fa --regions refFalt.exon.hg19 --min_overlap 5 --uniq --exon_out exon.readcount --gene_out gene.readcount input.bam | | ./readCount --reference hg19.fa --regions refFalt.exon.hg19 --min_overlap 5 --uniq --exon_out exon.readcount --gene_out gene.readcount input.bam |
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| + | The following example generate normalized read counts using the number of reads that are only mapped to targets: |
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| + | ./readCount --reference hg19.fa --regions refFalt.exon.hg19 --min_overlap 5 --uniq --norm_by_mapped2target --exon_out exon.readcount --gene_out gene.readcount input.bam |
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| == Input files == | | == Input files == |