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pangolin v1.1.5
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@aineniamh aineniamh released this 04 May 15:33
· 753 commits to master since this release
v1.1.5
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Learn about vigilant mode.

Updates in this release include:

  • Bug fix if query was identical (or near identical with only ambiguous sequences differentiating it) to the outgroup, the resulting polytomy was collapsing to the root node, which didn't have a bootstrap or alrt value. The lineage was being assigned but with incorrect support values of 0,0. This is now fixed and the support for being assigned the base of lineage A is now 100 - (100 - alternative lineage 1) - (100-alternative lineage 2) etc... Which is a more satisfying solution.

  • A new flag (--write-tree) that optionally writes a tree showing the placement of each query sequence in the guide tree.

  • Branches that are now non-zero but very very short are being collapsed, which should overall increase accuracy of calls.

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