nat.templatebrains 1.0 Unreleased

nat.templatebrains 0.9 2018-06-24

  • shortest_bridging_seq complains if template brain does not exist in graph (#34)
  • xform_brain does not transform when sample and reference are identical (#33)
  • templatebrain constructor does not need all boundingbox/origin etc fields to be specified (#24)
  • as.templatebrain.im3d should not need an im3d made from a file (#25)
  • Fix unstated dependencies in ‘tests’ error noted by CRAN r-devel for 0.8.2

nat.templatebrains 0.8 Unreleased

This is another major version bump since there is significant new/changed behaviour in xform_brain brain and friends which will now tag transformed objects with a registration template space. This means that nat functions will typically not be need to told the space of an object such as a neuron list in many cases, but some objects will have a new regtemplate attribute.

  • xform_brain should tag objects with their space (#16)
  • add regtemplate function as part of this
  • fix xform_brain should give better error when sample unknown (#29)
  • fix: teach plot3d.templatebrain to work with regtemplate (#32)
  • fix: add_reglist should not return anything (visibly) (#30)

nat.templatebrains 0.7 Unreleased

This is the first public release since 0.6.2 and there are some significant changes under the hood, hence the major version bump.

  • fix inversion of reglist objects read from disk (so that xform_brain calls depending on reglist objects work in both directions).
  • add support for memoisation of shortest_bridging_seq so that we do not need to rescan registration directories / reload on disk reglist objects.

nat.templatebrains 0.6.4 Unreleased

  • Add regtemplate function and integrate it with xform_brain and mirror_brain. It will often no longer be necessary to specify the initial space of objects to be transformed - you’ll still need to specify your target space though!

nat.templatebrains 0.6.3 Unreleased

  • add support for reglist objects containing one or more arbitrary transforms as bridging or mirroring registrations. A function add_reglist makes it easy to add new in memory reglist objects to those that can be used for bridging / mirroring between template brains (#21).

nat.templatebrains 0.6.2 2015-12-07

  • fix issues with git repository cloning on Windows

nat.templatebrains 0.6.1 2015-10-08

  • fix bug in mirror_brain for non-zero origin (#14)

nat.templatebrains 0.6 2015-07-01

  • add functions to download new registrations from git repositories: add_reg_folder, download_reg_repo, local_reg_dir_for_url, update_reg_repos.
  • add tests and documentation for new git functionality.
  • downloaded registrations are automatically made available on package load.

nat.templatebrains 0.5 Unreleased

  • xform_brain can now find the best available path from one template to another automatically.
  • this uses new functions bridging_graph, shortest_bridging_seq and allreg_dataframe
  • xform_brain now has an imagedata argument (to set sensible defaults for handling of inverse registrations, which are very slow for image data)
  • add doi field to templatebrain object
  • fix: mirror_brain passes on transform argument
  • dev: now imports igraph
  • dev: requires nat >=1.7.0

nat.templatebrains 0.4.1 2014-09-16

  • fix handling of regName in templatebrain
  • fix as.templatebrain.im3d (completely broken due to variable name error)
  • better defaults in as.templatebrain.im3d / as.templatebrain.character (both name and short name will be take from file name)
  • print.templatebrain now includes short name

nat.templatebrains 0.4 Unreleased

  • prepare for CRAN release
  • fix export of is.templatebrain
  • give mirror_brain explicit transform argument
  • full examples in mirror_brain and xform_brain functions and templatebrain-meths.
  • add FCWB.demo as data object that can be loaded
  • dev: integrate with nat.flybrains build on travis

nat.templatebrains 0.3 Unreleased

  • add bridging_sequence function to return a bridging registrations sequence that may span more than 2 template brains.
  • xform_brain can apply compound registrations in one streamxform call (but depends on nat >=1.5.9 and CMTK >= 3.2.2)
  • add is.templatebrain and as.character.templatebrain utility functions.
  • switch to single option regdirs for all paths
  • no longer suggests nat.flybrains but includes basic tests with internal data.

nat.templatebrains 0.2 Unreleased

  • move all generic functionality from nat.flybrains (which is now a data only package).
  • give xform_brain a via option
  • add options for directories containing bridging and mirroring registrations nb these can accept multiple dirs, but registration names must be globally unique.
  • suggest nat.flybrains for tests
  • package docs and tests