Ecoregionalization workflow

Seguineau Pauline

Last updated Sep 16, 2024

Launch in Tutorial Mode question
License: MIT
Tests: ✅ Results: Not yet automated

flowchart TD
  0["ℹ️ Input Dataset\noccurrence.txt"];
  style 0 stroke:#2c3143,stroke-width:4px;
  1["ℹ️ Input Dataset\npivot_wider_jupytool_notebook.ipynb"];
  style 1 stroke:#2c3143,stroke-width:4px;
  2["ℹ️ Input Dataset\nceamarc_env.tsv"];
  style 2 stroke:#2c3143,stroke-width:4px;
  3["Advanced Cut"];
  0 -->|output| 3;
  4["Column Regex Find And Replace"];
  3 -->|output| 4;
  5["Column Regex Find And Replace"];
  4 -->|out_file1| 5;
  6["Column Regex Find And Replace"];
  5 -->|out_file1| 6;
  7["Column Regex Find And Replace"];
  6 -->|out_file1| 7;
  8["Filter Tabular"];
  7 -->|out_file1| 8;
  9["Column Regex Find And Replace"];
  8 -->|output| 9;
  10["Column Regex Find And Replace"];
  9 -->|out_file1| 10;
  11["Column Regex Find And Replace"];
  10 -->|out_file1| 11;
  12["Column Regex Find And Replace"];
  11 -->|out_file1| 12;
  13["Column Regex Find And Replace"];
  12 -->|out_file1| 13;
  14["Merge Columns"];
  13 -->|out_file1| 14;
  15["Advanced Cut"];
  14 -->|out_file1| 15;
  16["Interactive JupyTool and notebook"];
  1 -->|output| 16;
  15 -->|output| 16;
  94963e98-6f80-46d8-83b8-8d6b7ed741c7["Output\nocc_out"];
  16 --> 94963e98-6f80-46d8-83b8-8d6b7ed741c7;
  style 94963e98-6f80-46d8-83b8-8d6b7ed741c7 stroke:#2c3143,stroke-width:4px;
  17["GeoNearestNeighbor"];
  2 -->|output| 17;
  16 -->|output_dataset| 17;
  2f611b1c-8c1a-4264-ac00-5b7e55392bb5["Output\nocc_env_out"];
  17 --> 2f611b1c-8c1a-4264-ac00-5b7e55392bb5;
  style 2f611b1c-8c1a-4264-ac00-5b7e55392bb5 stroke:#2c3143,stroke-width:4px;
  bba9ba4e-c33c-43cb-b9fa-c9274fd82519["Output\ninfo_out"];
  17 --> bba9ba4e-c33c-43cb-b9fa-c9274fd82519;
  style bba9ba4e-c33c-43cb-b9fa-c9274fd82519 stroke:#2c3143,stroke-width:4px;
  18["BRT tool prediction"];
  2 -->|output| 18;
  17 -->|occ_env_out| 18;
  6245d349-e816-4613-a872-0b8e01e10c59["Output\ncoll_pred"];
  18 --> 6245d349-e816-4613-a872-0b8e01e10c59;
  style 6245d349-e816-4613-a872-0b8e01e10c59 stroke:#2c3143,stroke-width:4px;
  4be2b84e-d872-4455-9e12-14c8a06c6314["Output\ncoll_val"];
  18 --> 4be2b84e-d872-4455-9e12-14c8a06c6314;
  style 4be2b84e-d872-4455-9e12-14c8a06c6314 stroke:#2c3143,stroke-width:4px;
  45762b1e-b439-4dec-b562-76bb46df5e9e["Output\ncoll_distri"];
  18 --> 45762b1e-b439-4dec-b562-76bb46df5e9e;
  style 45762b1e-b439-4dec-b562-76bb46df5e9e stroke:#2c3143,stroke-width:4px;
  04554920-c6e7-48c5-8539-490e77dbc38b["Output\ncoll_plots"];
  18 --> 04554920-c6e7-48c5-8539-490e77dbc38b;
  style 04554920-c6e7-48c5-8539-490e77dbc38b stroke:#2c3143,stroke-width:4px;
  19["TaxaSeeker"];
  2 -->|output| 19;
  17 -->|occ_env_out| 19;
  18 -->|outputpred| 19;
  69cff41c-8c11-42e9-8382-62bc6a5f3092["Output\nsummary"];
  19 --> 69cff41c-8c11-42e9-8382-62bc6a5f3092;
  style 69cff41c-8c11-42e9-8382-62bc6a5f3092 stroke:#2c3143,stroke-width:4px;
  b03c6c7e-9959-43fb-8578-ae6e3104f6fa["Output\ntaxa"];
  19 --> b03c6c7e-9959-43fb-8578-ae6e3104f6fa;
  style b03c6c7e-9959-43fb-8578-ae6e3104f6fa stroke:#2c3143,stroke-width:4px;
  9bb41df6-5af1-43df-905f-15e6c5706690["Output\ntaxa_clean"];
  19 --> 9bb41df6-5af1-43df-905f-15e6c5706690;
  style 9bb41df6-5af1-43df-905f-15e6c5706690 stroke:#2c3143,stroke-width:4px;
  20["ClusterEstimate"];
  2 -->|output| 20;
  18 -->|outputpred| 20;
  19 -->|output2| 20;
  4cbb776a-d867-475e-a896-e48f22b248f6["Output\nSIH_index"];
  20 --> 4cbb776a-d867-475e-a896-e48f22b248f6;
  style 4cbb776a-d867-475e-a896-e48f22b248f6 stroke:#2c3143,stroke-width:4px;
  d56aa88b-8afb-4bef-9fb4-57ed6a2ecfa1["Output\ndata_to_clus"];
  20 --> d56aa88b-8afb-4bef-9fb4-57ed6a2ecfa1;
  style d56aa88b-8afb-4bef-9fb4-57ed6a2ecfa1 stroke:#2c3143,stroke-width:4px;
  cba4ffd1-3266-4160-ae56-5ac62ee22e9b["Output\ndatabio_table"];
  20 --> cba4ffd1-3266-4160-ae56-5ac62ee22e9b;
  style cba4ffd1-3266-4160-ae56-5ac62ee22e9b stroke:#2c3143,stroke-width:4px;
  21["ClaraClust"];
  2 -->|output| 21;
  20 -->|output3| 21;
  20 -->|output2| 21;
  a5634294-3db2-4697-bcff-1d9616d08e92["Output\nSIH_plot"];
  21 --> a5634294-3db2-4697-bcff-1d9616d08e92;
  style a5634294-3db2-4697-bcff-1d9616d08e92 stroke:#2c3143,stroke-width:4px;
  5ec537aa-9210-422b-8e6d-91755129ab2b["Output\ncluster_points"];
  21 --> 5ec537aa-9210-422b-8e6d-91755129ab2b;
  style 5ec537aa-9210-422b-8e6d-91755129ab2b stroke:#2c3143,stroke-width:4px;
  7142fea0-9d2f-46cc-b214-d5b378baa56d["Output\ncluster_info"];
  21 --> 7142fea0-9d2f-46cc-b214-d5b378baa56d;
  style 7142fea0-9d2f-46cc-b214-d5b378baa56d stroke:#2c3143,stroke-width:4px;
  22["EcoMap"];
  21 -->|output2| 22;
  8fc24d6c-f750-4be8-a2d0-156f45ab12f5["Output\neco_map"];
  22 --> 8fc24d6c-f750-4be8-a2d0-156f45ab12f5;
  style 8fc24d6c-f750-4be8-a2d0-156f45ab12f5 stroke:#2c3143,stroke-width:4px;