Add option to allow for poor alignments to be used in visualization

JustinChu / JupiterPlot

A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.

GNU General Public License v3.0

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Add option to allow for poor alignments to be used in visualization #10

Closed JustinChu closed 2 years ago

JustinChu commented 6 years ago

I currently filter MAPQ < 50 and any alignments with an XA tag to minimize noise in the plot. These filtering options should be an option since things like repeat collapses could still be interesting for the user.

JustinChu commented 2 years ago

Feature added in 8b2e41d266ba528b0108d90dc1a61b8786d55069