GBIF data Quality check and filtering workflow Feb-2020
Version 1

Workflow Type: Galaxy
Stable

This Galaxy-E workflow was made from the "Cleaning GBIF data for the use in biogeography" tutorial and allows to:

  • Use CoordinateCleaner to automatically flag problematic records
  • Use GBIF provided meta-data to improve coordinate quality, tailored to your downstream analyses
  • Use automated cleaning algorithms of CoordinateCleaner to identify problematic contributing datasets
  • Visualize data on a map

Inputs

ID Name Description Type
sname sname runtime parameter for tool Get species occurrences data n/a
input input runtime parameter for tool Filter n/a

Steps

ID Name Description
0 Get species occurrences data toolshed.g2.bx.psu.edu/repos/ecology/spocc_occ/spocc_occ/0.9.0
1 Filter Filter1
2 Count Count1
3 Summary Statistics Summary_Statistics1
4 Summary Statistics Summary_Statistics1
5 Filter Filter1
6 Filter Filter1
7 Count Count1
8 Filter Filter1
9 OGR2ogr toolshed.g2.bx.psu.edu/repos/ecology/gdal_ogr2ogr/gdal_ogr2ogr/3.0.0
10 OGR2ogr toolshed.g2.bx.psu.edu/repos/ecology/gdal_ogr2ogr/gdal_ogr2ogr/3.0.0

Outputs

ID Name Description Type
output output n/a
out_file1 out_file1 n/a
out_file1 out_file1 n/a
out_file1 out_file1 n/a
out_file1 out_file1 n/a
out_file1 out_file1 n/a
out_file1 out_file1 n/a
out_file1 out_file1 n/a
out_file1 out_file1 n/a
shapefile shapefile n/a
output output n/a

Version History

Version 1 (earliest) Created 18th Nov 2022 at 14:39 by Yvan Le Bras

Initial commit


Open master ba37746
help Creators and Submitter
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Views: 74

Created: 18th Nov 2022 at 14:39

Last used: 6th Dec 2022 at 23:53

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