Triangulation-based estimators

.github/workflows/TagBot.yml

@@ -1,13 +1,15 @@
-name: TagBot
+name: Julia TagBot
 on:
-  schedule:
-    - cron: 0 * * * *
+  issue_comment:
+    types:
+      - created
+  workflow_dispatch:
 jobs:
   TagBot:
+    if: github.event_name == 'workflow_dispatch' || github.actor == 'JuliaTagBot'
     runs-on: ubuntu-latest
     steps:
       - uses: JuliaRegistries/TagBot@v1
         with:
           token: ${{ secrets.GITHUB_TOKEN }}
-          ssh: ${{ secrets.DOCUMENTER_KEY }}
-
+          ssh: ${{ secrets.DOCUMENTER_KEY }}

Project.toml

@@ -7,25 +7,35 @@ version = "0.11.1"
 [deps]
 DelayEmbeddings = "5732040d-69e3-5649-938a-b6b4f237613f"
 Distances = "b4f34e82-e78d-54a5-968a-f98e89d6e8f7"
+Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
 LinearAlgebra = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e"
 NearestNeighbors = "b8a86587-4115-5ab1-83bc-aa920d37bbce"
+Requires = "ae029012-a4dd-5104-9daa-d747884805df"
+Simplices = "d5428e67-3037-59ba-9ab1-57a04f0a3b6a"
 SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
 SpecialFunctions = "276daf66-3868-5448-9aa4-cd146d93841b"
 StaticArrays = "90137ffa-7385-5640-81b9-e52037218182"
 Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
 Wavelets = "29a6e085-ba6d-5f35-a997-948ac2efa89a"
 
 [compat]
-DelayEmbeddings = "1.10"
-Distances = "0.9, 0.10"
-NearestNeighbors = "0.4"
-SpecialFunctions = "0.10, 1.0"
-StaticArrays = "0.12, 1.0"
-Wavelets = "0.9"
+DelayEmbeddings = "^1.20"
+Distances = "0.9, ^0.10"
+Distributions = "^0.24"
+NearestNeighbors = "^0.4"
+Requires = "^1.1"
+SpecialFunctions = "^0.10, ^1"
+StaticArrays = "^0.12, ^1"
+Wavelets = "^0.9"
 julia = "1.5"
 
 [extras]
+Conda = "8f4d0f93-b110-5947-807f-2305c1781a2d"
+PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0"
+Simplices = "d5428e67-3037-59ba-9ab1-57a04f0a3b6a"
+StatsBase = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
 Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
+Pkg = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f"
 
 [targets]
-test = ["Test"]
+test = ["Test", "Conda", "PyCall", "Simplices", "StatsBase", "Pkg"]

docs/Project.toml

@@ -1,12 +1,13 @@
 [deps]
 Conda = "8f4d0f93-b110-5947-807f-2305c1781a2d"
 DelayEmbeddings = "5732040d-69e3-5649-938a-b6b4f237613f"
+Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
 Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
 DocumenterTools = "35a29f4d-8980-5a13-9543-d66fff28ecb8"
 DynamicalSystems = "61744808-ddfa-5f27-97ff-6e42cc95d634"
-Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f"
 PyCall = "438e738f-606a-5dbb-bf0a-cddfbfd45ab0"
 PyPlot = "d330b81b-6aea-500a-939a-2ce795aea3ee"
+Simplices = "d5428e67-3037-59ba-9ab1-57a04f0a3b6a"
 StaticArrays = "90137ffa-7385-5640-81b9-e52037218182"
 StatsBase = "2913bbd2-ae8a-5f71-8c99-4fb6c76f3a91"
 Wavelets = "29a6e085-ba6d-5f35-a997-948ac2efa89a"

docs/make.jl

@@ -11,6 +11,7 @@ using Entropies
 using PyPlot
 using DynamicalSystems
 using Wavelets
+using Simplices 
 
 # %% JuliaDynamics theme.
 # download the themes

docs/src/TransferOperator.md

@@ -4,10 +4,29 @@
 TransferOperator
 ```
 
+## Triangulation estimators
+
+```@docs
+SimplexExact
+SimplexPoint
+```
+
+## Rectangular estimators
+
+For rectangular binnings, use [`RectangularBinning`](@ref).
+
 ## Utility methods/types
 
 ```@docs
 InvariantMeasure
 invariantmeasure
-transfermatrix
+```
+
+### Transition information
+
+```@docs
+transferoperator
+TransferOperatorApproximation
+transitioninfo
+TransitionInfo
 ```

src/Entropies.jl

@@ -1,10 +1,20 @@
+
 module Entropies
+    using Requires
+
     include("core.jl")
     include("histogram_estimation.jl")
     include("counting_based/CountOccurrences.jl")
     include("symbolic/symbolic.jl")
-    include("binning_based/rectangular/rectangular_estimators.jl")
     include("kerneldensity/kerneldensity.jl")
     include("wavelet/wavelet.jl")
     include("nearest_neighbors/nearest_neighbors.jl")
+    include("binning_based/rectangular_estimators.jl")
+
+    function __init__()
+        @require Simplices="d5428e67-3037-59ba-9ab1-57a04f0a3b6a" begin
+            using .Simplices
+            include("binning_based/transferoperator/triangular/triangular.jl")
+        end
+    end
 end

src/binning_based/binningbased.jl

@@ -0,0 +1,2 @@
+abstract type BinningProbabilitiesEstimator <: ProbabilitiesEstimator end
+include("rectangular/rectangular_estimators.jl")