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| --- | ||
| site: freiburg | ||
| tags: [tools] | ||
| title: UseGalaxy.eu Tool Updates for 2024-10-13 | ||
| supporters: | ||
| - denbi | ||
| - elixir | ||
| --- | ||
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| On 2024-10-13, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in [Jenkins Build #481](https://build.galaxyproject.eu/job/usegalaxy-eu/job/install-tools/#481/) | ||
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| ## Species abundance | ||
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| - pampa_presabs was updated to [8d8aec182fb1](https://toolshed.g2.bx.psu.edu/view/ecology/pampa_presabs/8d8aec182fb1) | ||
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| ## Graph/Display Data | ||
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| - ggplot2_point was updated to [a36551483a8f](https://toolshed.g2.bx.psu.edu/view/iuc/ggplot2_point/a36551483a8f) | ||
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| ## Metabolomics | ||
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| - matchms_metadata_export was updated to [8ff29dee9f26](https://toolshed.g2.bx.psu.edu/view/recetox/matchms_metadata_export/8ff29dee9f26) | ||
| - matchms_metadata_match was updated to [43d40415654c](https://toolshed.g2.bx.psu.edu/view/recetox/matchms_metadata_match/43d40415654c) | ||
| - matchms_metadata_match was updated to [8a6bcc83171a](https://toolshed.g2.bx.psu.edu/view/recetox/matchms_metadata_match/8a6bcc83171a) | ||
| - matchms_networking was updated to [7c9599ecc2d3](https://toolshed.g2.bx.psu.edu/view/recetox/matchms_networking/7c9599ecc2d3) | ||
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| ## Machine Learning | ||
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| - sklearn_clf_metrics was updated to [15bcf1a7543b](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_clf_metrics/15bcf1a7543b) | ||
| - sklearn_data_preprocess was updated to [50b3e080cef0](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_data_preprocess/50b3e080cef0) | ||
| - sklearn_data_preprocess was updated to [add3c3a7c2b4](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_data_preprocess/add3c3a7c2b4) | ||
| - sklearn_ensemble was updated to [4ecc0ce9d0a2](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_ensemble/4ecc0ce9d0a2) | ||
| - sklearn_ensemble was updated to [d868914bce73](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_ensemble/d868914bce73) | ||
| - sklearn_feature_selection was updated to [a7c667ff83fe](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_feature_selection/a7c667ff83fe) | ||
| - sklearn_feature_selection was updated to [ae0fafb53c1d](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_feature_selection/ae0fafb53c1d) | ||
| - sklearn_feature_selection was updated to [ec25331946b8](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_feature_selection/ec25331946b8) | ||
| - sklearn_generalized_linear was updated to [c648d0716fb0](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_generalized_linear/c648d0716fb0) | ||
| - sklearn_label_encoder was updated to [026ff1ea9f94](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_label_encoder/026ff1ea9f94) | ||
| - sklearn_regression_metrics was updated to [a152c1d23379](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_regression_metrics/a152c1d23379) | ||
| - sklearn_sample_generator was updated to [6b14fe097541](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_sample_generator/6b14fe097541) | ||
| - sklearn_stacking_ensemble_models was updated to [2b679bb676be](https://toolshed.g2.bx.psu.edu/view/bgruening/sklearn_stacking_ensemble_models/2b679bb676be) | ||
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| ## RAD-seq | ||
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| - stacks_stats was updated to [3c4c922a4fb0](https://toolshed.g2.bx.psu.edu/view/iuc/stacks_stats/3c4c922a4fb0) | ||
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| ## Data Managers | ||
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| - checkv_end_to_end was updated to [e523d50513a4](https://toolshed.g2.bx.psu.edu/view/ufz/checkv_end_to_end/e523d50513a4) | ||
| - vibrant_build_database was updated to [200343b50d46](https://toolshed.g2.bx.psu.edu/view/ufz/vibrant_build_database/200343b50d46) | ||
| - virsorter_build_database was updated to [863ba94fb6e4](https://toolshed.g2.bx.psu.edu/view/ufz/virsorter_build_database/863ba94fb6e4) | ||
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| ## Metagenomic Analysis | ||
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| - kraken_report was updated to [1902d3de4a4f](https://toolshed.g2.bx.psu.edu/view/devteam/kraken_report/1902d3de4a4f) | ||
| - extract_metaphlan_database was updated to [4b6ac1f0042b](https://toolshed.g2.bx.psu.edu/view/iuc/extract_metaphlan_database/4b6ac1f0042b) | ||
| - virsorter was updated to [76a7de225f06](https://toolshed.g2.bx.psu.edu/view/ufz/virsorter/76a7de225f06) | ||
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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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| - gmx_fep was updated to [19d1d4c30402](https://toolshed.g2.bx.psu.edu/view/chemteam/gmx_fep/19d1d4c30402) | ||
| - gmx_merge_topology_files was updated to [33ed3c26b8c2](https://toolshed.g2.bx.psu.edu/view/chemteam/gmx_merge_topology_files/33ed3c26b8c2) | ||
| - gmx_merge_topology_files was updated to [930a403f7389](https://toolshed.g2.bx.psu.edu/view/chemteam/gmx_merge_topology_files/930a403f7389) | ||
| - gmx_sim was updated to [4c4f1761d31f](https://toolshed.g2.bx.psu.edu/view/chemteam/gmx_sim/4c4f1761d31f) | ||
| - gmx_sim was updated to [633f27174e8f](https://toolshed.g2.bx.psu.edu/view/chemteam/gmx_sim/633f27174e8f) | ||
| - gmx_sim was updated to [b1061cc2653a](https://toolshed.g2.bx.psu.edu/view/chemteam/gmx_sim/b1061cc2653a) | ||
| - gmx_trj was updated to [b4705476229d](https://toolshed.g2.bx.psu.edu/view/chemteam/gmx_trj/b4705476229d) | ||
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| ## Proteomics | ||
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| - eggnog_mapper was updated to [a37df6f6b869](https://toolshed.g2.bx.psu.edu/view/galaxyp/eggnog_mapper/a37df6f6b869) | ||
| - hardklor was updated to [539f157784e7](https://toolshed.g2.bx.psu.edu/view/galaxyp/hardklor/539f157784e7) | ||
| - metaquantome_sample was updated to [40ca115438d2](https://toolshed.g2.bx.psu.edu/view/galaxyp/metaquantome_sample/40ca115438d2) | ||
| - openms_clustermasstracesbyprecursor was updated to [f61e132c4536](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_clustermasstracesbyprecursor/f61e132c4536) | ||
| - openms_featurefindersuperhirn was updated to [c42075bb5123](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_featurefindersuperhirn/c42075bb5123) | ||
| - openms_fuzzydiff was updated to [ed9a839cbbda](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_fuzzydiff/ed9a839cbbda) | ||
| - openms_maprttransformer was updated to [fd6de4cdb9e9](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_maprttransformer/fd6de4cdb9e9) | ||
| - openms_nucleicacidsearchengine was updated to [00b91aaec050](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_nucleicacidsearchengine/00b91aaec050) | ||
| - openms_rnpxlsearch was updated to [3dc6d9795d5b](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_rnpxlsearch/3dc6d9795d5b) | ||
| - openms_ticcalculator was updated to [32667824b653](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_ticcalculator/32667824b653) | ||
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| ## Nanopore | ||
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| - nanopolish_eventalign was updated to [5c360c46eac7](https://toolshed.g2.bx.psu.edu/view/bgruening/nanopolish_eventalign/5c360c46eac7) | ||
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| ## BED | ||
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| - bedtools was updated to [6bb3cd018203](https://toolshed.g2.bx.psu.edu/view/iuc/bedtools/6bb3cd018203) | ||
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| ## FASTA/FASTQ | ||
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| - ncbi_fcs_gx was updated to [ed1ef564da41](https://toolshed.g2.bx.psu.edu/view/iuc/ncbi_fcs_gx/ed1ef564da41) | ||
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| ## Genome Diversity | ||
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| - fasttree was updated to [ef46a404db96](https://toolshed.g2.bx.psu.edu/view/iuc/fasttree/ef46a404db96) | ||
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| ## Mapping | ||
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| - bwameth was updated to [b4e6819b25ef](https://toolshed.g2.bx.psu.edu/view/iuc/bwameth/b4e6819b25ef) | ||
| - star_fusion was updated to [0b44456754e2](https://toolshed.g2.bx.psu.edu/view/iuc/star_fusion/0b44456754e2) | ||
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| ## Mothur | ||
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| - mothur_chimera_check was updated to [4b57c3241cbc](https://toolshed.g2.bx.psu.edu/view/iuc/mothur_chimera_check/4b57c3241cbc) | ||
| - mothur_get_coremicrobiome was updated to [42244e3619cf](https://toolshed.g2.bx.psu.edu/view/iuc/mothur_get_coremicrobiome/42244e3619cf) | ||
| - mothur_get_otulabels was updated to [b847275dfdf2](https://toolshed.g2.bx.psu.edu/view/iuc/mothur_get_otulabels/b847275dfdf2) | ||
| - mothur_remove_lineage was updated to [2a4d6c3d9b6d](https://toolshed.g2.bx.psu.edu/view/iuc/mothur_remove_lineage/2a4d6c3d9b6d) | ||
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| ## RNA Analysis | ||
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| - slamdunk was updated to [24657d5edede](https://toolshed.g2.bx.psu.edu/view/iuc/slamdunk/24657d5edede) | ||
| - graphprot_predict_profile was updated to [7bbb7bf6304f](https://toolshed.g2.bx.psu.edu/view/rnateam/graphprot_predict_profile/7bbb7bf6304f) | ||
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| ## Variant Calling | ||
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| - sansa_annotate was updated to [7ca2fba4be83](https://toolshed.g2.bx.psu.edu/view/iuc/sansa_annotate/7ca2fba4be83) | ||
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| ## Virology | ||
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| - freyja_aggregate_plot was updated to [948903a8555d](https://toolshed.g2.bx.psu.edu/view/iuc/freyja_aggregate_plot/948903a8555d) | ||
| - freyja_boot was updated to [95e88f407e86](https://toolshed.g2.bx.psu.edu/view/iuc/freyja_boot/95e88f407e86) | ||
| - freyja_demix was updated to [53b22b7dff19](https://toolshed.g2.bx.psu.edu/view/iuc/freyja_demix/53b22b7dff19) | ||
| - ivar_consensus was updated to [17f911830a8c](https://toolshed.g2.bx.psu.edu/view/iuc/ivar_consensus/17f911830a8c) | ||
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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) | ||
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| ## deepTools | ||
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| - deeptools_alignmentsieve was updated to [e5a296ce8fbb](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_alignmentsieve/e5a296ce8fbb) | ||
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| ## hca_sc_utils_viz | ||
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| - dropletutils_read_10x was updated to [d62a9aa0411e](https://toolshed.g2.bx.psu.edu/view/ebi-gxa/dropletutils_read_10x/d62a9aa0411e) | ||
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| ## hca_sc_label_analysis_tools | ||
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| - decoupler_pseudobulk was updated to [f321c60167d4](https://toolshed.g2.bx.psu.edu/view/ebi-gxa/decoupler_pseudobulk/f321c60167d4) | ||
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| ## Apollo | ||
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| - apollo_create_account was updated to [a46a509386d3](https://toolshed.g2.bx.psu.edu/view/gga/apollo_create_account/a46a509386d3) | ||
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| ## Phylogenetics | ||
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| - t_coffee was updated to [c67bd5acbae2](https://toolshed.g2.bx.psu.edu/view/earlhaminst/t_coffee/c67bd5acbae2) | ||
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| ## Get Data | ||
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| - ensembl_get_sequences was updated to [0fa1d1cc417d](https://toolshed.g2.bx.psu.edu/view/earlhaminst/ensembl_get_sequences/0fa1d1cc417d) | ||
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