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coconatfly 0.2.2

  • support malecns superclass/class/subclass change. To stay backward compatible for the time being the class hierarchy is mapped onto
    • class
    • subclass
    • subsubclass but the intent is to switch to superclass/class/subclass in the next version by @jefferis in #32
  • Correct handling of malecns lineage information by @jefferis in #33
  • cf_cosine_plot() now fetches all metadata cols by default (f1667a3c8318120626ae95c2116f73576fd2dfb4)
  • fix: pass on keep.all when cf_meta() receives keys
  • cf_cosine_plot(): Now reports % of partner connections kept across datasets.

Full Changelog: https://github.com/natverse/coconatfly/compare/v0.2.1...v0.2.2

coconatfly 0.2.1

  • cf_meta() gets a MoreArgs argument to pass on to subsidiary functions for each dataset
  • Using this cf_cosine_plot() and friends now prefer malecns foreign types (flywireType, mancType) when available and co-clustering with another dataset by @jefferis in #27
  • cf_meta(): new keep.all argument keep all columns, not just shared columns by @jefferis in #30
  • support for min_datasets in cosine clustering by @jefferis in #31

Full Changelog: https://github.com/natverse/coconatfly/compare/v0.2.0...v0.2.1

coconatfly 0.2.0

Although coconatfly has been in use for some time, this is the first stable release. It corresponds to what was used in the recent publication:

Schlegel, P., Yin, Y., Bates, A.S. et al. Whole-brain annotation and multi-connectome cell typing of Drosophila. Nature 634, 139–152 (2024). https://doi.org/10.1038/s41586-024-07686-5

The release is motivated in part because of some forthcoming changes that will slightly alter some core functionality of the package.

What's Changed

  • Minimal support for FANC clustering by @jefferis in #1
  • Feature/flywire examples by @jefferis in #5
  • First version cf_partner_summary by @jefferis in #7
  • malevnc_meta -> manc_meta by @jefferis in #10
  • fix handling of manc partners by @jefferis in #11
  • Update test-triple.R by @jefferis in #12
  • Support for the upcoming optic lobe release by @jefferis in #14
  • Allow messier input keys by @jefferis in #15
  • cf_partner summary enh by @jefferis in #16
  • flywire/fanc use different threshold definition by @jefferis in #17
  • Add connectivity and basic metadata support for banc by @jefferis in #19
  • Feature/fanc meta by @jefferis in #21
  • Fix/banc optic meta by @jefferis in #25
  • Feature/cosine plot warn on drop by @jefferis in #26

Full Changelog: https://github.com/natverse/coconatfly/commits/v0.2.0