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;
  7af50d6c-dec8-47f6-a6f0-c9f2cddf211a["Output\nocc_out"];
  16 --> 7af50d6c-dec8-47f6-a6f0-c9f2cddf211a;
  style 7af50d6c-dec8-47f6-a6f0-c9f2cddf211a stroke:#2c3143,stroke-width:4px;
  17["GeoNearestNeighbor"];
  2 -->|output| 17;
  16 -->|output_dataset| 17;
  183ff3c0-df93-48c5-9f31-22e801893502["Output\nocc_env_out"];
  17 --> 183ff3c0-df93-48c5-9f31-22e801893502;
  style 183ff3c0-df93-48c5-9f31-22e801893502 stroke:#2c3143,stroke-width:4px;
  4f71ed55-85ba-4f84-9905-53f595794ad1["Output\ninfo_out"];
  17 --> 4f71ed55-85ba-4f84-9905-53f595794ad1;
  style 4f71ed55-85ba-4f84-9905-53f595794ad1 stroke:#2c3143,stroke-width:4px;
  18["BRT tool prediction"];
  2 -->|output| 18;
  17 -->|occ_env_out| 18;
  cfab9ec6-d7c9-47ed-a790-62fa0c4aa27b["Output\ncoll_pred"];
  18 --> cfab9ec6-d7c9-47ed-a790-62fa0c4aa27b;
  style cfab9ec6-d7c9-47ed-a790-62fa0c4aa27b stroke:#2c3143,stroke-width:4px;
  3fac242d-5f44-4ecf-801f-ae32582c7d83["Output\ncoll_val"];
  18 --> 3fac242d-5f44-4ecf-801f-ae32582c7d83;
  style 3fac242d-5f44-4ecf-801f-ae32582c7d83 stroke:#2c3143,stroke-width:4px;
  c6c9bb7b-24a5-408d-83b2-1d34353b566f["Output\ncoll_distri"];
  18 --> c6c9bb7b-24a5-408d-83b2-1d34353b566f;
  style c6c9bb7b-24a5-408d-83b2-1d34353b566f stroke:#2c3143,stroke-width:4px;
  fb42fb72-e0de-4f9f-9652-ec3a57723aa0["Output\ncoll_plots"];
  18 --> fb42fb72-e0de-4f9f-9652-ec3a57723aa0;
  style fb42fb72-e0de-4f9f-9652-ec3a57723aa0 stroke:#2c3143,stroke-width:4px;
  19["TaxaSeeker"];
  2 -->|output| 19;
  17 -->|occ_env_out| 19;
  18 -->|outputpred| 19;
  34d0807c-04aa-4b2d-bca7-c384c26269b2["Output\nsummary"];
  19 --> 34d0807c-04aa-4b2d-bca7-c384c26269b2;
  style 34d0807c-04aa-4b2d-bca7-c384c26269b2 stroke:#2c3143,stroke-width:4px;
  5612a279-b09f-4773-85cb-97aed4d7fbdb["Output\ntaxa"];
  19 --> 5612a279-b09f-4773-85cb-97aed4d7fbdb;
  style 5612a279-b09f-4773-85cb-97aed4d7fbdb stroke:#2c3143,stroke-width:4px;
  4c3b479a-8795-4e3c-839e-41ed6846d6f5["Output\ntaxa_clean"];
  19 --> 4c3b479a-8795-4e3c-839e-41ed6846d6f5;
  style 4c3b479a-8795-4e3c-839e-41ed6846d6f5 stroke:#2c3143,stroke-width:4px;
  20["ClusterEstimate"];
  2 -->|output| 20;
  18 -->|outputpred| 20;
  19 -->|output2| 20;
  4ecb3afa-58e1-4ee5-a8c9-f07a888f9a31["Output\nSIH_index"];
  20 --> 4ecb3afa-58e1-4ee5-a8c9-f07a888f9a31;
  style 4ecb3afa-58e1-4ee5-a8c9-f07a888f9a31 stroke:#2c3143,stroke-width:4px;
  f4e3b237-0e80-4652-8f96-265079769b70["Output\ndata_to_clus"];
  20 --> f4e3b237-0e80-4652-8f96-265079769b70;
  style f4e3b237-0e80-4652-8f96-265079769b70 stroke:#2c3143,stroke-width:4px;
  708956bd-e1fa-46e8-b18e-56c8896fcef2["Output\ndatabio_table"];
  20 --> 708956bd-e1fa-46e8-b18e-56c8896fcef2;
  style 708956bd-e1fa-46e8-b18e-56c8896fcef2 stroke:#2c3143,stroke-width:4px;
  21["ClaraClust"];
  2 -->|output| 21;
  20 -->|output3| 21;
  20 -->|output2| 21;
  f951b77e-491b-4a66-a744-0be2c1282996["Output\nSIH_plot"];
  21 --> f951b77e-491b-4a66-a744-0be2c1282996;
  style f951b77e-491b-4a66-a744-0be2c1282996 stroke:#2c3143,stroke-width:4px;
  bf5a1ee4-ae55-481d-8930-307979c85eed["Output\ncluster_points"];
  21 --> bf5a1ee4-ae55-481d-8930-307979c85eed;
  style bf5a1ee4-ae55-481d-8930-307979c85eed stroke:#2c3143,stroke-width:4px;
  0c113431-8833-484c-a177-72ba32dc0574["Output\ncluster_info"];
  21 --> 0c113431-8833-484c-a177-72ba32dc0574;
  style 0c113431-8833-484c-a177-72ba32dc0574 stroke:#2c3143,stroke-width:4px;
  22["EcoMap"];
  21 -->|output2| 22;
  8cb52211-208f-43b7-845c-cdb33057de75["Output\neco_map"];
  22 --> 8cb52211-208f-43b7-845c-cdb33057de75;
  style 8cb52211-208f-43b7-845c-cdb33057de75 stroke:#2c3143,stroke-width:4px;