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Visualize reads with bisulfite conversion

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Wanding Zhou - Bioinformatics edited this page May 2, 2017 · 1 revision

The biscuit tview is similar to samtools tview but color reads considering bisulfite conversion. Make sure you supply the reference fasta to the command. i.e.

$ biscuit tview -g chr19:7525080 input.bam ref.fa

For reference, CpGs are marked in red, C and Gs in other context are marked in blue. For reads, retended C/Gs are marked in red, converted C/Gs are marked in blue. Mismatches not related to bisulfite conversion are marked in yellow.

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