GalaxyE_tool_list.yml

---
api_key : admin
galaxy_instance : http://localhost:8080
install_repository_dependencies: true
install_resolver_dependencies: true
install_tool_dependencies: false

tools:
  - name: 'collapse_collections'
    owner: 'nml'
    tool_panel_section_label: 'Collection Operations'

  - name: dwt_var_perfeature
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: transformation
    owner: ethevenot
    tool_panel_section_label: 'Statistics'

  - name: anova
    owner: lecorguille
    tool_panel_section_label: 'Statistics'

  - name: heatmap
    owner: ethevenot
    tool_panel_section_label: 'Statistics'

  - name: univariate
    owner: ethevenot
    tool_panel_section_label: 'Statistics'

  - name: multivariate
    owner: ethevenot
    tool_panel_section_label: 'Statistics'

  - name: biosigner
    owner: ethevenot
    tool_panel_section_label: 'Statistics'

  - name: add_input_name_as_column
    owner: mvdbeek
    tool_panel_section_label: 'Text Manipulation'

  - name: text_processing
    owner: bgruening
    tool_panel_section_label: 'Text Manipulation'

  - name: column_maker
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: prinseq
    owner: iuc
    tool_panel_section_label: 'Text Manipulation'
  
 
  - name: split_file_on_column
    owner: bgruening
    tool_panel_section_label: 'Text Manipulation'
  
  - name: merge_cols
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'
  
  - name: coverage
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'
 
  - name: regex_replace
    owner: kellrott
    tool_panel_section_label: 'Text Manipulation'

  - name: merge
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: intersect
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: join
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: subtract
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: subtract_query
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: unique
    owner: bgruening
    tool_panel_section_label: 'Text Manipulation'

  - name: reshape2_melt
    owner: iuc
    tool_panel_section_label: 'Text Manipulation'

  - name: reshape2_cast
    owner: iuc
    tool_panel_section_label: 'Text Manipulation'

  - name: add_value
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: jq
    owner: iuc
    tool_panel_section_label: 'Text Manipulation'

  - name: tables_arithmetic_operations
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: flanking_features
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: cluster
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: get_flanks
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: complement
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: basecoverage
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: dna_filtering
    owner: devteam
    tool_panel_section_label: 'Text Manipulation'

  - name: column_order_header_sort
    owner: iuc
    tool_panel_section_label: 'Text Manipulation'

  - name: column_remove_by_header
    owner: iuc
    tool_panel_section_label: 'Text Manipulation'

  - name: metagenomeseq_normalization
    owner: iuc
    tool_panel_section_label: 'Text Manipulation'

  - name: gff3_rebase
    owner: iuc
    tool_panel_section_label: 'Text Manipulation'

  - name: column_arrange_by_header
    owner: bgruening
    tool_panel_section_label: 'Filter and Sort'

  - name: seq_filter_by_id
    owner: peterjc
    tool_panel_section_label: 'Filter and Sort'

  - name: find_in_reference
    owner: jjohnson
    tool_panel_section_label: 'Filter and Sort'

  - name: sample_seqs
    owner: peterjc
    tool_panel_section_label: 'Filter and Sort'

  - name: suite_datamash
    owner: iuc
    tool_panel_section_label: 'Join, Subtract and Group'

  - name: collection_column_join
    owner: iuc
    tool_panel_section_label: 'Join, Subtract and Group'

  - name: numeric_clustering
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: normalize_dataset
    owner: bebatut
    tool_panel_section_label: 'Statistics'

  - name: seq_composition
    owner: peterjc
    tool_panel_section_label: 'Statistics'

  - name: t_test_two_samples
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: plot_from_lda
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: mine
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: lda_analysis
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: generate_pc_lda_matrix
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: count_gff_features
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: correlation
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: venn_list
    owner: peterjc
    tool_panel_section_label: 'Graph/Display Data'

  - name: scatterplot
    owner: devteam
    tool_panel_section_label: 'Graph/Display Data'

  - name: histogram
    owner: devteam
    tool_panel_section_label: 'Graph/Display Data'

  - name: gmaj
    owner: devteam
    tool_panel_section_label: 'Graph/Display Data'

  - name: xy_plot
    owner: devteam
    tool_panel_section_label: 'Graph/Display Data'

  - name: draw_stacked_barplots
    owner: devteam
    tool_panel_section_label: 'Graph/Display Data'

  - name: ggplot2_pca
    owner: iuc
    tool_panel_section_label: 'Graph/Display Data'

  - name: pygenometracks
    owner: iuc
    tool_panel_section_label: 'Graph/Display Data'

  - name: ggplot2_heatmap
    owner: iuc
    tool_panel_section_label: 'Graph/Display Data'

  - name: ggplot2_violin
    owner: iuc
    tool_panel_section_label: 'Graph/Display Data'

  - name: ggplot2_heatmap2
    owner: iuc
    tool_panel_section_label: 'Graph/Display Data'

  - name: ggplot2_point
    owner: iuc
    tool_panel_section_label: 'Graph/Display Data'

  - name: ggplot2_histogram
    owner: iuc
    tool_panel_section_label: 'Graph/Display Data'

  - name: tsne
    owner: iuc
    tool_panel_section_label: 'Graph/Display Data'

  - name: best_regression_subsets
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: principal_component_analysis
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: kernel_principal_component_analysis
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: kernel_canonical_correlation_analysis
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: canonical_correlation_analysis
    owner: devteam
    tool_panel_section_label: 'Statistics'

  - name: sklearn_svm_classifier
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_sample_generator
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_searchcv
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_build_pipeline
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_pairwise_metrics
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_nn_classifier
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_numeric_clustering
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_ensemble
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_feature_selection
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_data_preprocess
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_clf_metrics
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_regression_metrics
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_discriminant_classifier
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_generalized_linear
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_model_validation
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: scipy_sparse
    owner: bgruening
    tool_panel_section_label: 'Statistics'

  - name: sklearn_suite
    owner: bgruening
    tool_panel_section_label: 'Statistics'


  - name: regex_find_replace
    owner: galaxyp
    tool_panel_section_label: 'Text Manipulation'


  - name: suite_obitools
    owner: iuc
    tool_panel_section_label: 'DNA metabarcoding'
    

  - name: fastq_groomer
    owner: devteam
    tool_panel_section_label: 'Quality check'
    
  - name: fastqc
    owner: devteam
    tool_panel_section_label: 'Quality check'
    
  - name: multiqc
    owner: iuc
    tool_panel_section_label: 'Quality check'
    
  - name: mothur_sffinfo
    owner: iuc
    tool_panel_section_label: 'File Conversion'
    
  - name: fastq_combiner
    owner: devteam
    tool_panel_section_label: 'File Conversion'
    
  - name: frogs_3_1_0
    owner: frogs
    tool_panel_section_label: 'Find Rapidly OTUs from NGS'
    
  - name: bwa
    owner: devteam
    tool_panel_section_label: 'Building LOCI from RADseq'

  - name: suite_stacks
    owner: iuc
    tool_panel_section_label: 'Building LOCI from RADseq'







  - name: csv_to_tabular
    owner: mnhn65mo
    tool_panel_section_label: 'File Conversion'
    

  - name: tabular_to_csv
    owner: mnhn65mo
    tool_panel_section_label: 'File Conversion'


  - name: xls2tabular
    owner: ylebras
    tool_panel_section_label: 'File Conversion'
    

  - name: butterfly_analysis
    owner: mnhn65mo
    tool_panel_section_label: 'Graph/Display Data'
    

  - name: gdal_gdaladdo
    owner: ecology
    tool_panel_section_label: 'GIS Data Handling'
    

  - name: gdal_gdalbuildvrt
    owner: ecology
    tool_panel_section_label: 'GIS Data Handling'
    

  - name: gdal_gdalinfo
    owner: ecology
    tool_panel_section_label: 'GIS Data Handling'
    

  - name: gdal_gdal_merge
    owner: ecology
    tool_panel_section_label: 'GIS Data Handling'
    

  - name: gdal_gdal_translate
    owner: ecology
    tool_panel_section_label: 'GIS Data Handling'
    

  - name: gdal_gdalwarp
    owner: ecology
    tool_panel_section_label: 'GIS Data Handling'
    

  - name: gdal_ogr2ogr
    owner: ecology
    tool_panel_section_label: 'GIS Data Handling'
    

  - name: gdal_ogrinfo
    owner: ecology
    tool_panel_section_label: 'GIS Data Handling'
    

  - name: get_worldclim_data
    owner: mnhn65mo
    tool_panel_section_label: 'Get Data'
    

  - name: spocc_occ
    owner: ecology
    tool_panel_section_label: 'Get Data'
    

  - name: netcdf_handler
    owner: mnhn65mo
    tool_panel_section_label: 'File conversion'
    

  - name: rdata_handler
    owner: mnhn65mo
    tool_panel_section_label: 'File conversion'
    

  - name: regionalgam
    owner: mnhn65mo
    tool_panel_section_label: 'Phenology & Abundance Index'
    

  - name: vigiechiro
    owner: mnhn65mo
    tool_panel_section_label: 'Animal Detection on Acoustic Recordings'
     

  - name: vigiechiro_bilanenrichipf
    owner: ecology
    tool_panel_section_label: 'Animal Detection on Acoustic Recordings'
      

  - name: vigiechiro_bilanenrichirp
    owner: ecology
    tool_panel_section_label: 'Animal Detection on Acoustic Recordings'
    

  - name: vigiechiro_idcorrect_2ndlayer
    owner: ecology
    tool_panel_section_label: 'Animal Detection on Acoustic Recordings'
    

  - name: vigiechiro_idvalid
    owner: ecology
    tool_panel_section_label: 'Animal Detection on Acoustic Recordings'