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, 12:35, 14 February 2012
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| == Diagnose sequencing quality == | | == Diagnose sequencing quality == |
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| Qplot is designed and implemented by the need of checking sequencing quality. | | Qplot is designed and implemented by the need of checking sequencing quality. |
| Besides the exampled of analyzing RNA-seq data as in the manuscript, | | Besides the exampled of analyzing RNA-seq data as in the manuscript, |
| here we demonstrate two scenarios in which qplot help us identify potential problem after obtaining sequencing data. | | here we demonstrate two scenarios in which qplot help us identify potential problem after obtaining sequencing data. |
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| * Base quality distributed abnormally | | * Base quality distributed abnormally |
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| Further we notice that effects is caused by different software from Illumina sequencers. | | Further we notice that effects is caused by different software from Illumina sequencers. |
| In this particular example, all base qualities are wrongly added '33'. Such data used in variant calling may increase false positive SNP calling. | | In this particular example, all base qualities are wrongly added '33'. Such data used in variant calling may increase false positive SNP calling. |
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| * Bar-coded samples | | * Bar-coded samples |