Ordev#57

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olli0601 wants to merge 29 commits intomasterfrom

Commits on Jul 9, 2019

added "find.networks" and examples
olli0601
committed

Commits on Jul 10, 2019

Commits on Jul 16, 2019

Commits on Jul 18, 2019

ggnet2 is now part of GGally
twoseventwo
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Commits on Jul 19, 2019

bugfix in determining ML chain, thanks Matthew
olli0601
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Merge branch 'ordev' of https://github.com/BDI-pathogens/phyloscanner.git into ordev
olli0601
committed

Commits on Aug 6, 2019

Namespace change
twoseventwo
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Merge branch 'ordev' of https://github.com/BDI-pathogens/phyloscanner into ordev
twoseventwo
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Commits on Sep 2, 2019

added vignette "reconstruct_transmission_networks.Rmd"
olli0601
committed

Commits on Sep 9, 2019

added casting to SIMMAP trees
olli0601
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Commits on Sep 10, 2019

Commits on Oct 1, 2019

File name typo in example
twoseventwo
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Changed find.pairs.in.networks to work without reading from files. Changed some file names.
twoseventwo
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Commits on Oct 11, 2019

Updated for new unnest() syntax
twoseventwo
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Updates to .gitignore
twoseventwo
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Commits on Oct 29, 2019

Commits on Nov 21, 2019

restored previous find.networks, updated plotting
olli0601
committed

Commits on Nov 25, 2019

updated find.pairs.in.networks
olli0601
committed