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| --- | ||
| site: freiburg | ||
| tags: [tools] | ||
| title: UseGalaxy.eu Tool Updates for 2024-08-18 | ||
| supporters: | ||
| - denbi | ||
| - elixir | ||
| --- | ||
|
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| On 2024-08-18, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in [Jenkins Build #470](https://build.galaxyproject.eu/job/usegalaxy-eu/job/install-tools/#470/) | ||
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| ## Text Manipulation | ||
|
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||
| - text_processing was updated to [86755160afbf](https://toolshed.g2.bx.psu.edu/view/bgruening/text_processing/86755160afbf) | ||
| - filter_tabular was updated to [4d5aae46f850](https://toolshed.g2.bx.psu.edu/view/iuc/filter_tabular/4d5aae46f850) | ||
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| ## Metabolomics | ||
|
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| - biotransformer was updated to [6cd2a9e6ac49](https://toolshed.g2.bx.psu.edu/view/recetox/biotransformer/6cd2a9e6ac49) | ||
| - mfassignr_histnoise was updated to [5d99cb9755da](https://toolshed.g2.bx.psu.edu/view/recetox/mfassignr_histnoise/5d99cb9755da) | ||
| - mfassignr_isofiltr was updated to [e4ddc3bc7e15](https://toolshed.g2.bx.psu.edu/view/recetox/mfassignr_isofiltr/e4ddc3bc7e15) | ||
| - mfassignr_kmdnoise was updated to [99d021734000](https://toolshed.g2.bx.psu.edu/view/recetox/mfassignr_kmdnoise/99d021734000) | ||
| - mfassignr_mfassign was updated to [9cbbfd54d7c4](https://toolshed.g2.bx.psu.edu/view/recetox/mfassignr_mfassign/9cbbfd54d7c4) | ||
| - mfassignr_mfassigncho was updated to [db058392cb2e](https://toolshed.g2.bx.psu.edu/view/recetox/mfassignr_mfassigncho/db058392cb2e) | ||
| - mfassignr_recal was updated to [13ef8b748af9](https://toolshed.g2.bx.psu.edu/view/recetox/mfassignr_recal/13ef8b748af9) | ||
| - mfassignr_recallist was updated to [7e5ccc8b6f6e](https://toolshed.g2.bx.psu.edu/view/recetox/mfassignr_recallist/7e5ccc8b6f6e) | ||
| - mfassignr_snplot was updated to [7579b0cda787](https://toolshed.g2.bx.psu.edu/view/recetox/mfassignr_snplot/7579b0cda787) | ||
| - rcx_tk was updated to [54401f9d1a30](https://toolshed.g2.bx.psu.edu/view/recetox/rcx_tk/54401f9d1a30) | ||
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| ## QIIME 2 | ||
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| - qiime2__deblur__denoise_16S was updated to [2572fc0f88f2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__deblur__denoise_16S/2572fc0f88f2) | ||
| - qiime2__deblur__denoise_16S was updated to [b883cbea5623](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__deblur__denoise_16S/b883cbea5623) | ||
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| ## ChemicalToolBox | ||
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| - openbabel_addh was updated to [7b6fd1c273cd](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_addh/7b6fd1c273cd) | ||
| - openbabel_change_title was updated to [2cd8aee0d830](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_change_title/2cd8aee0d830) | ||
| - openbabel_change_title was updated to [a638d8d13bb3](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_change_title/a638d8d13bb3) | ||
| - openbabel_compound_convert was updated to [4242b4d68e9c](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_compound_convert/4242b4d68e9c) | ||
| - openbabel_filter was updated to [8ee975c49a3d](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_filter/8ee975c49a3d) | ||
| - openbabel_filter was updated to [988085c7a0ea](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_filter/988085c7a0ea) | ||
| - openbabel_genprop was updated to [50eaae9df8d3](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_genprop/50eaae9df8d3) | ||
| - openbabel_obgrep was updated to [985ab0acd514](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_obgrep/985ab0acd514) | ||
| - openbabel_remduplicates was updated to [12aca74f07d7](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_remduplicates/12aca74f07d7) | ||
| - openbabel_remduplicates was updated to [c5de6c19eb06](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_remduplicates/c5de6c19eb06) | ||
| - openbabel_remions was updated to [f70b83b730ac](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_remions/f70b83b730ac) | ||
| - openbabel_remove_protonation_state was updated to [22a866858b81](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_remove_protonation_state/22a866858b81) | ||
| - openbabel_remsmall was updated to [81836d586797](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_remsmall/81836d586797) | ||
| - openbabel_spectrophore_search was updated to [f5d7ffbb2d33](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_spectrophore_search/f5d7ffbb2d33) | ||
| - openbabel_structure_distance_finder was updated to [49242402887b](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_structure_distance_finder/49242402887b) | ||
| - openbabel_structure_distance_finder was updated to [8302ab092300](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_structure_distance_finder/8302ab092300) | ||
| - openbabel_subsearch was updated to [9adf3fae2771](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_subsearch/9adf3fae2771) | ||
| - openbabel_svg_depiction was updated to [75ee9c410951](https://toolshed.g2.bx.psu.edu/view/bgruening/openbabel_svg_depiction/75ee9c410951) | ||
| - prepare_ligands_for_docking was updated to [a5f4b80e6769](https://toolshed.g2.bx.psu.edu/view/bgruening/prepare_ligands_for_docking/a5f4b80e6769) | ||
| - prepare_ligands_for_docking was updated to [fac2c28b4c55](https://toolshed.g2.bx.psu.edu/view/bgruening/prepare_ligands_for_docking/fac2c28b4c55) | ||
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| ## FASTA/FASTQ | ||
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| - fastp was updated to [d60c3f704da0](https://toolshed.g2.bx.psu.edu/view/iuc/fastp/d60c3f704da0) | ||
| - pear was updated to [037f0acc7830](https://toolshed.g2.bx.psu.edu/view/iuc/pear/037f0acc7830) | ||
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| ## Variant Calling | ||
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| - basil was updated to [77fc7640abc7](https://toolshed.g2.bx.psu.edu/view/iuc/basil/77fc7640abc7) | ||
| - bcftools_annotate was updated to [0f087051441e](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_annotate/0f087051441e) | ||
| - bcftools_call was updated to [bf06b66ab5c2](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_call/bf06b66ab5c2) | ||
| - bcftools_cnv was updated to [6d35a3780bfd](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_cnv/6d35a3780bfd) | ||
| - bcftools_cnv was updated to [75a85c76c9c6](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_cnv/75a85c76c9c6) | ||
| - bcftools_concat was updated to [08296952d12f](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_concat/08296952d12f) | ||
| - bcftools_concat was updated to [74303445f6bd](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_concat/74303445f6bd) | ||
| - bcftools_consensus was updated to [147de996e34f](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_consensus/147de996e34f) | ||
| - bcftools_consensus was updated to [da0bf365652d](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_consensus/da0bf365652d) | ||
| - bcftools_convert_from_vcf was updated to [04aa97fc125c](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_convert_from_vcf/04aa97fc125c) | ||
| - bcftools_convert_to_vcf was updated to [2b3ce2abc747](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_convert_to_vcf/2b3ce2abc747) | ||
| - bcftools_csq was updated to [1da985043619](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_csq/1da985043619) | ||
| - bcftools_filter was updated to [656a916779fe](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_filter/656a916779fe) | ||
| - bcftools_filter was updated to [bc199fd136f8](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_filter/bc199fd136f8) | ||
| - bcftools_gtcheck was updated to [0e9cc2520372](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_gtcheck/0e9cc2520372) | ||
| - bcftools_isec was updated to [57f36434474f](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_isec/57f36434474f) | ||
| - bcftools_merge was updated to [7cb9d0f396c3](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_merge/7cb9d0f396c3) | ||
| - bcftools_mpileup was updated to [f59a4ab0e5b1](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_mpileup/f59a4ab0e5b1) | ||
| - bcftools_norm was updated to [aaac3ed89508](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_norm/aaac3ed89508) | ||
| - bcftools_plugin_color_chrs was updated to [36960e552ddc](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_plugin_color_chrs/36960e552ddc) | ||
| - bcftools_plugin_color_chrs was updated to [51d28b4d3a04](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_plugin_color_chrs/51d28b4d3a04) | ||
| - bcftools_plugin_frameshifts was updated to [399b40b2bcab](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_plugin_frameshifts/399b40b2bcab) | ||
| - bcftools_plugin_frameshifts was updated to [abd806291372](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_plugin_frameshifts/abd806291372) | ||
| - bcftools_plugin_setgt was updated to [262bba5b90ef](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_plugin_setgt/262bba5b90ef) | ||
| - bcftools_plugin_setgt was updated to [76609128aef7](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_plugin_setgt/76609128aef7) | ||
| - bcftools_plugin_split_vep was updated to [d55feecb6dc1](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_plugin_split_vep/d55feecb6dc1) | ||
| - bcftools_plugin_split_vep was updated to [e05d81ad3f93](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_plugin_split_vep/e05d81ad3f93) | ||
| - bcftools_query was updated to [a850902cac64](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_query/a850902cac64) | ||
| - bcftools_query was updated to [fc19c09a8beb](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_query/fc19c09a8beb) | ||
| - bcftools_reheader was updated to [8057cf55fa41](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_reheader/8057cf55fa41) | ||
| - bcftools_reheader was updated to [d453025d7e5d](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_reheader/d453025d7e5d) | ||
| - bcftools_roh was updated to [4d44109ae1f8](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_roh/4d44109ae1f8) | ||
| - bcftools_stats was updated to [999c1918479b](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_stats/999c1918479b) | ||
| - bcftools_view was updated to [052eb3814f0f](https://toolshed.g2.bx.psu.edu/view/iuc/bcftools_view/052eb3814f0f) | ||
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| ## Convert Formats | ||
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| - msconvert was updated to [ab6c14374bc0](https://toolshed.g2.bx.psu.edu/view/galaxyp/msconvert/ab6c14374bc0) | ||
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| ## Proteomics | ||
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| - openms_openpepxl was updated to [a2a842b00f9c](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_openpepxl/a2a842b00f9c) | ||
| - openms_percolatoradapter was updated to [0fc9ae55bcfc](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_percolatoradapter/0fc9ae55bcfc) | ||
| - openms_percolatoradapter was updated to [e7881a82b56d](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_percolatoradapter/e7881a82b56d) | ||
| - openms_xfdr was updated to [81402a5e4173](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_xfdr/81402a5e4173) | ||
| - openms_xfdr was updated to [9a6e3bb0f358](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_xfdr/9a6e3bb0f358) | ||
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| ## Machine Learning | ||
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| - chatgpt_openai_api was updated to [08c658e9aa9e](https://toolshed.g2.bx.psu.edu/view/bgruening/chatgpt_openai_api/08c658e9aa9e) | ||
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| ## Imaging | ||
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| - cp_tile was updated to [878bafb411dd](https://toolshed.g2.bx.psu.edu/view/bgruening/cp_tile/878bafb411dd) | ||
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| ## Annotation | ||
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| - microsatbed was updated to [3f6e5c701945](https://toolshed.g2.bx.psu.edu/view/iuc/microsatbed/3f6e5c701945) | ||
| - roary was updated to [9b2b122d0415](https://toolshed.g2.bx.psu.edu/view/iuc/roary/9b2b122d0415) | ||
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| ## None | ||
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| - data_manager_diamond_database_builder was updated to [4a08b7b76b78](https://toolshed.g2.bx.psu.edu/view/iuc/data_manager_diamond_database_builder/4a08b7b76b78) | ||
| - data_manager_omamer was updated to [f8d72275878e](https://toolshed.g2.bx.psu.edu/view/iuc/data_manager_omamer/f8d72275878e) | ||
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| ## Metagenomic Analysis | ||
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| - ampvis2_alpha_diversity was updated to [61acf8a76396](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_alpha_diversity/61acf8a76396) | ||
| - ampvis2_boxplot was updated to [874b1a4fe7f0](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_boxplot/874b1a4fe7f0) | ||
| - ampvis2_core was updated to [f360e09dd04b](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_core/f360e09dd04b) | ||
| - ampvis2_export_fasta was updated to [7c3fea31765c](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_export_fasta/7c3fea31765c) | ||
| - ampvis2_frequency was updated to [ff9bc9357c89](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_frequency/ff9bc9357c89) | ||
| - ampvis2_heatmap was updated to [0895b4ebcfc8](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_heatmap/0895b4ebcfc8) | ||
| - ampvis2_load was updated to [91efbd7b52dc](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_load/91efbd7b52dc) | ||
| - ampvis2_merge_ampvis2 was updated to [a14326f1e7df](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_merge_ampvis2/a14326f1e7df) | ||
| - ampvis2_mergereplicates was updated to [74ee43d45476](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_mergereplicates/74ee43d45476) | ||
| - ampvis2_octave was updated to [a194e5f09106](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_octave/a194e5f09106) | ||
| - ampvis2_ordinate was updated to [46a85469c104](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_ordinate/46a85469c104) | ||
| - ampvis2_otu_network was updated to [47aec96764b8](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_otu_network/47aec96764b8) | ||
| - ampvis2_rankabundance was updated to [d1727ab06449](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_rankabundance/d1727ab06449) | ||
| - ampvis2_rarecurve was updated to [febf16487e02](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_rarecurve/febf16487e02) | ||
| - ampvis2_setmetadata was updated to [024a22e84bea](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_setmetadata/024a22e84bea) | ||
| - ampvis2_subset_samples was updated to [317728cb0f8a](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_subset_samples/317728cb0f8a) | ||
| - ampvis2_subset_taxa was updated to [adf75bf963f7](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_subset_taxa/adf75bf963f7) | ||
| - ampvis2_timeseries was updated to [6121b061418a](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_timeseries/6121b061418a) | ||
| - ampvis2_venn was updated to [6acf30f0d9fa](https://toolshed.g2.bx.psu.edu/view/iuc/ampvis2_venn/6acf30f0d9fa) | ||
| - bigscape was updated to [3447eb0ce896](https://toolshed.g2.bx.psu.edu/view/iuc/bigscape/3447eb0ce896) | ||
| - metaphlan was updated to [1a037928504c](https://toolshed.g2.bx.psu.edu/view/iuc/metaphlan/1a037928504c) | ||
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| ## Nanopore | ||
|
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||
| - nanoplot was updated to [a38bdcec9e4c](https://toolshed.g2.bx.psu.edu/view/iuc/nanoplot/a38bdcec9e4c) | ||
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| ## Phylogenetics | ||
|
|
||
| - hyphy_prime was updated to [4072360120e4](https://toolshed.g2.bx.psu.edu/view/iuc/hyphy_prime/4072360120e4) | ||
| - pacu_map was updated to [b1f16ffc171f](https://toolshed.g2.bx.psu.edu/view/iuc/pacu_map/b1f16ffc171f) | ||
| - pacu_snp was updated to [7ba3e44093c9](https://toolshed.g2.bx.psu.edu/view/iuc/pacu_snp/7ba3e44093c9) | ||
| - picrust2_add_descriptions was updated to [2f47a294ef49](https://toolshed.g2.bx.psu.edu/view/iuc/picrust2_add_descriptions/2f47a294ef49) | ||
| - picrust2_hsp was updated to [3b133b8d578a](https://toolshed.g2.bx.psu.edu/view/iuc/picrust2_hsp/3b133b8d578a) | ||
| - picrust2_metagenome_pipeline was updated to [709adbfcf308](https://toolshed.g2.bx.psu.edu/view/iuc/picrust2_metagenome_pipeline/709adbfcf308) | ||
| - picrust2_pathway_pipeline was updated to [f53beb324696](https://toolshed.g2.bx.psu.edu/view/iuc/picrust2_pathway_pipeline/f53beb324696) | ||
| - picrust2_pipeline was updated to [d6bb2e3febda](https://toolshed.g2.bx.psu.edu/view/iuc/picrust2_pipeline/d6bb2e3febda) | ||
| - picrust2_place_seqs was updated to [73b56418e7f4](https://toolshed.g2.bx.psu.edu/view/iuc/picrust2_place_seqs/73b56418e7f4) | ||
| - picrust2_shuffle_predictions was updated to [677f3c8db525](https://toolshed.g2.bx.psu.edu/view/iuc/picrust2_shuffle_predictions/677f3c8db525) | ||
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