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JustinChu / JupiterPlot

A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.
GNU General Public License v3.0
68 stars 11 forks source link

Allow more global alignment solution to be used #3

Closed JustinChu closed 6 years ago

JustinChu commented 7 years ago

This visualization requires the use of local alignment of scafftigs (scaffold broken by a stretch of Ns/unfilled scaffold gaps). Thus, if repetitive regions exist they may not align properly even if correctly scaffolded especially if surrounded by these scaffold gaps.

JustinChu commented 6 years ago

Currently allows for a custom bam file of scafftigs to be provided