Ecoregionalization workflow
1.0

Workflow Type: Galaxy

Associated Tutorial

This workflows is part of the tutorial Ecoregionalization workflow tutorial, available in the GTN

Features

Thanks to...

Workflow Author(s): Seguineau Pauline

Tutorial Author(s): Pauline Seguineau

Tutorial Contributor(s): Yvan Le Bras, Marie Josse, Ankerl Yassine

gtn star logo followed by the word workflows

Inputs

ID Name Description Type
ceamarc_env.tsv ceamarc_env.tsv n/a
  • File
occurrence.txt occurrence.txt n/a
  • File
pivot_wider_jupytool_notebook.ipynb pivot_wider_jupytool_notebook.ipynb n/a
  • File

Steps

ID Name Description
3 Advanced Cut toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cut_tool/9.3+galaxy1
4 Column Regex Find And Replace toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.3
5 Column Regex Find And Replace toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.3
6 Column Regex Find And Replace toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.3
7 Column Regex Find And Replace toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.3
8 Filter Tabular toolshed.g2.bx.psu.edu/repos/iuc/filter_tabular/filter_tabular/3.3.0
9 Column Regex Find And Replace toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.3
10 Column Regex Find And Replace toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.3
11 Column Regex Find And Replace toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.3
12 Column Regex Find And Replace toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.3
13 Column Regex Find And Replace toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.3
14 Merge Columns toolshed.g2.bx.psu.edu/repos/devteam/merge_cols/mergeCols1/1.0.2
15 Advanced Cut toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cut_tool/9.3+galaxy1
16 Interactive JupyTool and notebook interactive_tool_jupyter_notebook
17 GeoNearestNeighbor toolshed.g2.bx.psu.edu/repos/ecology/ecoregion_geonearestneighbor/ecoregion_GeoNearestNeighbor/0.1.0+galaxy0
18 BRT tool prediction toolshed.g2.bx.psu.edu/repos/ecology/ecoregion_brt_analysis/ecoregion_brt_analysis/0.1.0+galaxy0
19 TaxaSeeker toolshed.g2.bx.psu.edu/repos/ecology/ecoregion_taxa_seeker/ecoregion_taxa_seeker/0.1.0+galaxy0
20 ClusterEstimate toolshed.g2.bx.psu.edu/repos/ecology/ecoregion_cluster_estimate/ecoregion_cluster_estimate/0.1.0+galaxy0
21 ClaraClust Please ensure that the parameter 'Number of Clusters Wanted' reflects your actual desired number. To determine this parameter, refer to your SIH index plot from the ClusterEstimate step. toolshed.g2.bx.psu.edu/repos/ecology/ecoregion_clara_cluster/ecoregion_clara_cluster/0.1.0+galaxy0
22 EcoMap toolshed.g2.bx.psu.edu/repos/ecology/ecoregion_eco_map/ecoregion_eco_map/0.1.0+galaxy0

Outputs

ID Name Description Type
occ_out occ_out n/a
  • File
occ_env_out occ_env_out n/a
  • File
info_out info_out n/a
  • File
coll_pred coll_pred n/a
  • File
coll_val coll_val n/a
  • File
coll_distri coll_distri n/a
  • File
coll_plots coll_plots n/a
  • File
summary summary n/a
  • File
taxa taxa n/a
  • File
taxa_clean taxa_clean n/a
  • File
SIH_index SIH_index n/a
  • File
data_to_clus data_to_clus n/a
  • File
databio_table databio_table n/a
  • File
SIH_plot SIH_plot n/a
  • File
cluster_points cluster_points n/a
  • File
cluster_info cluster_info n/a
  • File
eco_map eco_map n/a
  • File

Version History

1.0 (earliest) Created 16th Sep 2024 at 14:07 by Helena Rasche

Added/updated 4 files


Open master a360288
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Views: 218   Downloads: 73

Created: 16th Sep 2024 at 14:07

Last updated: 16th Sep 2024 at 14:07

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