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Future features from 3.0 #374

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Commits on Oct 12, 2023

  1. Formatting

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  2. Docs

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  3. Typo

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Commits on Oct 13, 2023

  1. Typo

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  2. Files are unnecessary with new information signature

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  3. Internal dispatch for information measures for use in independence tests

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  4. Docs

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  5. Correct dispatch

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  6. Remove redundant method

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  7. Add missing import

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  8. Rename file and update syntax

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  9. Correct number of variables

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  10. est is no longer a field

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  11. Better print text

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  12. better info docs

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  13. Start migration of transfer entropy

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  14. CMIDecomposition estimator

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  15. wrapper to allow CMIDecomposition for cmi estimator

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  16. Remove some @show calls

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  17. Transfer entropies

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  18. Include indep tests

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  19. Temporarily disable

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  20. Reintroduce codify_marginals

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  21. More tests

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  22. Include file

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  23. Update docs

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  24. Typo

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  25. Update docs

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  26. Typo

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  27. Include transfer entropies in docs

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  28. Typos

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  29. export

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  30. Add missing reference in docs

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Commits on Oct 14, 2023

  1. Document transfer entropy estimators

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  2. Reintroduce references

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  3. Include missing estimator

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  4. Reintroduce Lindner estimator

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  5. Remove redundant file

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  6. Remove old files

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  7. Reintroduce transfer entropy estimation for transfer entropy 

    But not make public yet
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  8. Remove old code

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  9. Pretty printing of decomposition estimators

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  10. Correct function names

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  11. Hint at possible error

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  12. transfer entropy tests

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  13. Correct names

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  14. Resolve method ambiguity by using a function to check inputs

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  15. Move definition to core.jl

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  16. More tests and pretty printing

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  17. More tests and pretty printing

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  18. Move tests

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  19. Docs

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  20. Docs

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  21. Remove redundant definitions

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  22. Use new syntax for CMI examples

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  23. Documentation examples

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  24. Docs...

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  25. References from ComplexityMeasures.jl

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  26. Rearrange docs

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  27. More docs

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  28. Discretization using CosineSimilarityBinning

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  29. Delete example system docs

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  30. Docs for core

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  31. Migrate conditional entropy examples

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  32. Missing @docs tag

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  33. More docs

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  34. Docs

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  35. Remove some text

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  36. Fix SurrogateAssociationTest for transfer entropy

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  37. Fix various transfer entropy related issues and docs

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  38. Add compatible OutcomeSpaces to docstring

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  39. More transfer entropy tests

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  40. Test Lindner

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  41. New API

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Commits on Oct 15, 2023

  1. New API for cross mappings (estimators contain measure)

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  2. More docs

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  3. New syntax

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  4. Include closeness and cross mapping files

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  5. Some doc restructuring

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  6. Include relevant deprecations

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  7. correct field name

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  8. Fix crossmap doc example

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  9. Add explicit error messages

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  10. Changelog for cross mappings

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  11. More "deprecations"

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  12. update changelog

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  13. Move utility method to relevant file

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  14. Remove obsolete tests

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  15. Remove duplicated header

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Commits on Oct 16, 2023

  1. Explicit imports

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  2. Make formal API

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  3. Add note on measures defines also in Distances.jl

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  4. Reintroduce correlation measures

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  5. Correlation API

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  6. Move counting and discretization to information measures

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  7. Crossmap API

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  8. Correlation examples

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  9. Reintroduce closeness measures

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  10. Reintroduce JointDistanceDistributionTest

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Commits on Jan 2, 2024

  1. Adhere to latest ComplexityMeasures api

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Commits on Jan 20, 2024

  1. WIP

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  2. Don't run compathelper so often

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  3. Fix some missing refs

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  4. Temporarily use local build_docs_with_style

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Commits on Jun 6, 2024

  1. Start reorganizing docs mirroring ComplexityMeasures.jl

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  2. docs

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Commits on Jun 7, 2024

  1. Move crossmap api

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Commits on Jul 5, 2024

  1. Aim for 1.11 while developing (tests/docs build faster)

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  2. WIP: docs...

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Commits on Jul 6, 2024

  1. wip: Unify syntax, better docs, etc..

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  2. Update docs

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  3. WIP...

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Commits on Jul 7, 2024

  1. Preserve axis information when taking marginals

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Commits on Jul 14, 2024

  1. Add coverage files to gitignore

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  2. deprecations

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  3. deprecations

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  4. Multidimensional surrogates

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  5. Fix import

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  6. Headers

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  7. Add reference

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  8. Refer to abstract types

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  9. deprecations

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    kahaaga committed Jul 14, 2024
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  10. WIP...

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Commits on Jul 21, 2024

  1. organize a bit better

    @kahaaga
    kahaaga committed Jul 21, 2024
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  2. update const name

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    kahaaga committed Jul 21, 2024
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  3. move to utils

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  4. Use cov/cor from StateSpaceSets 1.5

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    kahaaga committed Jul 21, 2024
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  5. Update package versions, add StyledStrings and set julia to 1.10

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    kahaaga committed Jul 21, 2024
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  6. Remove redundant tests

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    kahaaga committed Jul 21, 2024
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  7. fix tests...

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    kahaaga committed Jul 21, 2024
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  8. fix tests

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    kahaaga committed Jul 21, 2024
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  9. fix tests

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    kahaaga committed Jul 21, 2024
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  10. Typo

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    kahaaga committed Jul 21, 2024
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  11. Convenience union

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    kahaaga committed Jul 21, 2024
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  12. Remove unnecessary print

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    kahaaga committed Jul 21, 2024
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  13. Fix syntax

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    kahaaga committed Jul 21, 2024
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  14. Update changelog

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    kahaaga committed Jul 21, 2024
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  15. Fix tests

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    kahaaga committed Jul 21, 2024
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  16. faster tests with fewer sample

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    kahaaga committed Jul 21, 2024
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  17. fix tests

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    kahaaga committed Jul 21, 2024
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  18. cosmetics

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  19. input validation

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  20. cosmetics

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  21. remove integration

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  22. remove redundant ContingencyMatrix

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    kahaaga committed Jul 21, 2024
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  23. Add test dep

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  24. Test systems

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  25. update deps

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  26. clean up main file

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    kahaaga committed Jul 21, 2024
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  27. remove redundant test

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  28. test cross mapping independence tests

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    kahaaga committed Jul 21, 2024
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  29. Fix tests

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    kahaaga committed Jul 21, 2024
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  30. remove redundant file

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  31. Faster tests using fewer samples

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    kahaaga committed Jul 21, 2024
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  32. Fewer samples -> faster tests

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  33. input checks for all information measures

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    kahaaga committed Jul 21, 2024
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  34. fix tests and faster tests

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    kahaaga committed Jul 21, 2024
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  35. faster tests

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    kahaaga committed Jul 21, 2024
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  36. Fix reference

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    kahaaga committed Jul 21, 2024
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  37. Part mutual information tests

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    kahaaga committed Jul 21, 2024
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  38. fix discretization for 1d state space sets

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    kahaaga committed Jul 21, 2024
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  39. pmi tests and fix implementation

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    kahaaga committed Jul 21, 2024
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  40. more tests

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    kahaaga committed Jul 21, 2024
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  41. remove dev deps from project

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    kahaaga committed Jul 21, 2024
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  42. fewer samples, faster tests

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    kahaaga committed Jul 21, 2024
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  43. Remove unnecessary deps from doc build

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    kahaaga committed Jul 21, 2024
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  44. LabelledArrays is needed

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    kahaaga committed Jul 21, 2024
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  45. Fix example

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    kahaaga committed Jul 21, 2024
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  46. Fix OCE and PC

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    kahaaga committed Jul 21, 2024
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  47. Consistent syntax

    @kahaaga
    kahaaga committed Jul 21, 2024
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  48. Necessary imports

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    kahaaga committed Jul 21, 2024
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  49. consistent syntax

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    kahaaga committed Jul 21, 2024
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  50. Reintroduce network graph tests

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    kahaaga committed Jul 21, 2024
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  51. Reintroduce example for graphs

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    kahaaga committed Jul 21, 2024
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Commits on Jul 22, 2024

  1. improve figures

    @kahaaga
    kahaaga committed Jul 22, 2024
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  2. update docs

    @kahaaga
    kahaaga committed Jul 22, 2024
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  3. fix tests and remove outdated syntax

    @kahaaga
    kahaaga committed Jul 22, 2024
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  4. less samples, faster tests

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    kahaaga committed Jul 22, 2024
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  5. actually test recurrence-based methods

    @kahaaga
    kahaaga committed Jul 22, 2024
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  6. more crossmap tests

    @kahaaga
    kahaaga committed Jul 22, 2024
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  7. use rng

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    kahaaga committed Jul 22, 2024
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  8. correct syntax

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    kahaaga committed Jul 22, 2024
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  9. use rng

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    kahaaga committed Jul 22, 2024
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  10. EntropyDecomposition tests

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    kahaaga committed Jul 22, 2024
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  11. Fix tests

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    kahaaga committed Jul 22, 2024
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  12. Un-support TransferOperator estimation of transfer entropy

    @kahaaga
    kahaaga committed Jul 22, 2024
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  13. type parameterize outcome spaces, so we can dispatch properly

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    kahaaga committed Jul 22, 2024
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  14. Fix transfer entropy estimation using TransferOperator

    @kahaaga
    kahaaga committed Jul 22, 2024
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  15. Generic dispatch for codifying marginals 

    New outcome spaces that implements `codify` now works automagically.
    @kahaaga
    kahaaga committed Jul 22, 2024
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  16. node labels

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    kahaaga committed Jul 22, 2024
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  17. Examples

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  18. Add estimator to docstring

    @kahaaga
    kahaaga committed Jul 22, 2024
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  19. more examples

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  20. fix test

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    kahaaga committed Jul 22, 2024
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  21. remove reference to convenience func

    @kahaaga
    kahaaga committed Jul 22, 2024
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  22. More examples

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  23. More examples

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  24. examples for joint entropy

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    kahaaga committed Jul 22, 2024
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  25. Add more examples

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    kahaaga committed Jul 22, 2024
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  26. Update docs and test

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    kahaaga committed Jul 22, 2024
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  27. Update tests

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Commits on Jul 23, 2024

  1. Keep important info in docstrings

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    kahaaga committed Jul 23, 2024
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  2. Clean-up

    @kahaaga
    kahaaga committed Jul 23, 2024
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  3. Add tests

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    kahaaga committed Jul 23, 2024
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  4. Add comments for clarity

    @kahaaga
    kahaaga committed Jul 23, 2024
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  5. Clean up docs

    @kahaaga
    kahaaga committed Jul 23, 2024
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  6. Clean up docs

    @kahaaga
    kahaaga committed Jul 23, 2024
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  7. Polish cross-map docs

    @kahaaga
    kahaaga committed Jul 23, 2024
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  8. fix references

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  9. typo

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    kahaaga committed Jul 23, 2024
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  10. Clean cross mapping stuff

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  11. rng

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  12. Cross map docs

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    kahaaga committed Jul 23, 2024
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  13. ccm docs

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    kahaaga committed Jul 23, 2024
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  14. missing references

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  15. Clean up cross map stuff 

    Also DO export the predict and crossmap methods.
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  16. Clean up index.md

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    kahaaga committed Jul 23, 2024
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  17. cross map stuff

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  18. add missing reference

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  19. fix codify method

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    kahaaga committed Jul 23, 2024
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  20. add conversion method

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  21. add method for JointProbabilities

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    kahaaga committed Jul 23, 2024
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  22. Add Hilbert

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  23. add tests

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  24. docs..

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  25. test coverage for MCR and RMCD

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    kahaaga committed Jul 23, 2024
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  26. remove redundant code

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  27. remove redundant docstring

    @kahaaga
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  28. Add hilbert rerference in docs

    @kahaaga
    kahaaga committed Jul 23, 2024
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  29. Example and docs for recurrence measures

    @kahaaga
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  30. Remove redundant docs

    @kahaaga
    kahaaga committed Jul 23, 2024
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  31. Rename

    @kahaaga
    kahaaga committed Jul 23, 2024
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  32. docs

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  33. fix tutorial

    @kahaaga
    kahaaga committed Jul 23, 2024
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  34. Fix examples

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    kahaaga committed Jul 23, 2024
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  35. SymbolicTransferEntropy convenience

    @kahaaga
    kahaaga committed Jul 23, 2024
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  36. Fix docs

    @kahaaga
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  37. Better example

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  38. typo

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  39. Test SymbolicTransferEntropy

    @kahaaga
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  40. test coverage

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  41. more tests

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  42. More tests

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Commits on Jul 24, 2024

  1. tests

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  2. remove reference to deleted file

    @kahaaga
    kahaaga committed Jul 24, 2024
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  3. tests...

    @kahaaga
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  4. more tests

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  5. todo

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    kahaaga committed Jul 24, 2024
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  6. bbnue.. wip

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    kahaaga committed Jul 24, 2024
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  7. wip..

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    kahaaga committed Jul 24, 2024
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