On 2025-05-11, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #513

DNA Metabarcoding

• obi_annotate was updated to f82cefbbcea5

Metagenomic Analysis

• drep_compare was updated to f0334664a47b
• drep_dereplicate was updated to f54e7b3da33c
• gtdbtk_classify_wf was updated to 30a4bdf88e14
• kaiju_addtaxonnames was updated to 1832b854f0ae
• kaiju_kaiju was updated to c020a41566fd
• kaiju_kaiju2krona was updated to 360618c7e37d
• kaiju_kaiju2table was updated to eedcb4cc9e5a
• kaiju_mergeoutputs was updated to 01585d091036
• name2taxid was updated to 954448bad930
• profile2cami was updated to bd9817864a28
• vibrant was updated to 4883d709b470

QIIME 2

• qiime2__alignment__mafft was updated to ab62eec0cd2b
• qiime2__alignment__mafft_add was updated to 4ea333b09d2c
• qiime2__alignment__mask was updated to 2c9fc6d16f81
• qiime2__composition__add_pseudocount was updated to 68d6090cd226
• qiime2__composition__ancom was updated to fcb75c51072d
• qiime2__composition__ancombc was updated to 2d288113a582
• qiime2__composition__tabulate was updated to 600f11a2839d
• qiime2__cutadapt__demux_paired was updated to 0c5a140e04f3
• qiime2__cutadapt__demux_single was updated to 5fed73dc56b0
• qiime2__cutadapt__trim_paired was updated to aa7ffb412083
• qiime2__cutadapt__trim_single was updated to b652bc0bd0ff
• qiime2__dada2__denoise_ccs was updated to 1eb5c20bf4cf
• qiime2__dada2__denoise_paired was updated to efafec3b4e06
• qiime2__dada2__denoise_pyro was updated to d244cbb520a0
• qiime2__dada2__denoise_single was updated to 1e09dd637eb7
• qiime2__deblur__denoise_16S was updated to 2572fc0f88f2
• qiime2__deblur__denoise_16S was updated to b883cbea5623
• qiime2__deblur__denoise_other was updated to 987f3e32bc09
• qiime2__deblur__visualize_stats was updated to 9e46d37c994a
• qiime2__demux__emp_paired was updated to 6acfde3557b4
• qiime2__demux__emp_single was updated to 89d319dd67f2
• qiime2__demux__filter_samples was updated to 4a7e51ec5689
• qiime2__demux__subsample_paired was updated to 36aa7a55e756
• qiime2__demux__subsample_single was updated to 8199a544a842
• qiime2__demux__summarize was updated to e058a939e844
• qiime2__diversity__adonis was updated to 6579a7b08fd6
• qiime2__diversity__alpha was updated to 15114dfce30e
• qiime2__diversity__alpha_correlation was updated to 1f40041cf946
• qiime2__diversity__alpha_group_significance was updated to 0465253099bf
• qiime2__diversity__alpha_phylogenetic was updated to ee712ca8cac8
• qiime2__diversity__alpha_rarefaction was updated to 1a1ad9b61531
• qiime2__diversity__beta was updated to 9aa038590267
• qiime2__diversity__beta_correlation was updated to 2d568787fa99
• qiime2__diversity__beta_group_significance was updated to adc5f0fb3c3f
• qiime2__diversity__beta_phylogenetic was updated to 6f129e6127a7
• qiime2__diversity__beta_rarefaction was updated to ba17431d7703
• qiime2__diversity__bioenv was updated to 56a0004016a9
• qiime2__diversity__core_metrics was updated to 88eff88c3e00
• qiime2__diversity__core_metrics_phylogenetic was updated to 38bd36bfb5af
• qiime2__diversity__filter_alpha_diversity was updated to dbaadcb5b5f2
• qiime2__diversity__filter_distance_matrix was updated to 366473274326
• qiime2__diversity__mantel was updated to f0637bd36c6f
• qiime2__diversity__pcoa was updated to e8d08c5dec8c
• qiime2__diversity__pcoa_biplot was updated to 37a3c3468136
• qiime2__diversity__procrustes_analysis was updated to 0ac6fda18afb
• qiime2__diversity__tsne was updated to e7a9b459575e
• qiime2__diversity__umap was updated to 5e122d6a9670
• qiime2__diversity_lib__alpha_passthrough was updated to 93509f4b48aa
• qiime2__diversity_lib__beta_passthrough was updated to 9d4eac2198a0
• qiime2__diversity_lib__beta_phylogenetic_meta_passthrough was updated to 6e591077b4b3
• qiime2__diversity_lib__beta_phylogenetic_passthrough was updated to dc43869f7657
• qiime2__diversity_lib__bray_curtis was updated to 82046a5bb300
• qiime2__diversity_lib__faith_pd was updated to 49c00aaacd6d
• qiime2__diversity_lib__jaccard was updated to 58c46e32cff6
• qiime2__diversity_lib__observed_features was updated to 37e114ead80a
• qiime2__diversity_lib__pielou_evenness was updated to 389fba4362bc
• qiime2__diversity_lib__shannon_entropy was updated to 00420a6149c8
• qiime2__diversity_lib__unweighted_unifrac was updated to 4b073ff8dfab
• qiime2__diversity_lib__weighted_unifrac was updated to dac91f2a6edf
• qiime2__emperor__biplot was updated to 60b974644777
• qiime2__emperor__plot was updated to ad8f7d728a95
• qiime2__emperor__procrustes_plot was updated to 7332848f37ab
• qiime2__feature_classifier__blast was updated to 07d2b31e5dea
• qiime2__feature_classifier__classify_consensus_blast was updated to 1a669211cfed
• qiime2__feature_classifier__classify_consensus_vsearch was updated to d33916702866
• qiime2__feature_classifier__classify_hybrid_vsearch_sklearn was updated to 26c3d6bc0754
• qiime2__feature_classifier__classify_sklearn was updated to 83b0feec07cf
• qiime2__feature_classifier__extract_reads was updated to 19337dd7d160
• qiime2__feature_classifier__find_consensus_annotation was updated to 4f5ee6c1fd33
• qiime2__feature_classifier__fit_classifier_naive_bayes was updated to 07f2440927a3
• qiime2__feature_classifier__fit_classifier_sklearn was updated to a66d426ba05b
• qiime2__feature_classifier__vsearch_global was updated to fd8ee3b7a00b
• qiime2__feature_table__core_features was updated to d46074b693bd
• qiime2__feature_table__filter_features was updated to 4190dbce3775
• qiime2__feature_table__filter_features_conditionally was updated to 03a35f7bf38a
• qiime2__feature_table__filter_samples was updated to 682d957756f9
• qiime2__feature_table__filter_seqs was updated to 14bb84c18f3e
• qiime2__feature_table__group was updated to dfadf6b977d3
• qiime2__feature_table__heatmap was updated to 84941f46775e
• qiime2__feature_table__merge was updated to 4739cd035af0
• qiime2__feature_table__merge_seqs was updated to b0a9320437c2
• qiime2__feature_table__merge_taxa was updated to 0941b3434b84
• qiime2__feature_table__presence_absence was updated to 9133f4809ee1
• qiime2__feature_table__rarefy was updated to 1f43fb6d2d13
• qiime2__feature_table__relative_frequency was updated to 60dedc1e1f7c
• qiime2__feature_table__rename_ids was updated to 413b93003f0f
• qiime2__feature_table__summarize was updated to 0298280f2bfd
• qiime2__feature_table__tabulate_seqs was updated to a3a920ac8909
• qiime2__feature_table__transpose was updated to 492edbc22449
• qiime2__fragment_insertion__classify_otus_experimental was updated to 9f3165bbb183
• qiime2__fragment_insertion__filter_features was updated to 4f4a3231e69d
• qiime2__fragment_insertion__sepp was updated to 480f1f48ffea
• qiime2__longitudinal__anova was updated to 4df0cd029add
• qiime2__longitudinal__feature_volatility was updated to d0c1032c407b
• qiime2__longitudinal__first_differences was updated to 34b713fc4356
• qiime2__longitudinal__first_distances was updated to 83b0a04db957
• qiime2__longitudinal__linear_mixed_effects was updated to 01648b9936bf
• qiime2__longitudinal__maturity_index was updated to c1ce31c7b91f
• qiime2__longitudinal__nmit was updated to c9b7113bf8f1
• qiime2__longitudinal__pairwise_differences was updated to 069b6f81c2c8
• qiime2__longitudinal__pairwise_distances was updated to 7fc5d8fc4c4a
• qiime2__longitudinal__plot_feature_volatility was updated to 5d155150e8de
• qiime2__longitudinal__volatility was updated to 6873643e4779
• qiime2__metadata__distance_matrix was updated to 5305caf97a38
• qiime2__metadata__shuffle_groups was updated to 7d80bc1c73aa
• qiime2__metadata__tabulate was updated to 692bb81f7f1e
• qiime2__phylogeny__align_to_tree_mafft_fasttree was updated to b252342b97a5
• qiime2__phylogeny__align_to_tree_mafft_iqtree was updated to abdee16863d9
• qiime2__phylogeny__align_to_tree_mafft_raxml was updated to 62e2e0c60e14
• qiime2__phylogeny__fasttree was updated to 130d1647cc1b
• qiime2__phylogeny__filter_table was updated to 3042b2e32868
• qiime2__phylogeny__filter_tree was updated to 818d20c622ed
• qiime2__phylogeny__iqtree was updated to e6c24d76366b
• qiime2__phylogeny__iqtree_ultrafast_bootstrap was updated to 28ef140b35ce
• qiime2__phylogeny__midpoint_root was updated to 2a58fba2eb04
• qiime2__phylogeny__raxml was updated to 6f7c4386f0ce
• qiime2__phylogeny__raxml_rapid_bootstrap was updated to a47dc629c367
• qiime2__phylogeny__robinson_foulds was updated to 4b5ea6850212
• qiime2__quality_control__bowtie2_build was updated to 9b1cb8c8842d
• qiime2__quality_control__evaluate_composition was updated to 5357caeb7c22
• qiime2__quality_control__evaluate_seqs was updated to 63b1c4ade428
• qiime2__quality_control__evaluate_taxonomy was updated to 324ea0a40d05
• qiime2__quality_control__exclude_seqs was updated to 895060360adc
• qiime2__quality_control__filter_reads was updated to f13a41d2295e
• qiime2__quality_filter__q_score was updated to 9f0f673e6ea0
• qiime2__rescript__get_bv_brc_genome_features was updated to 1cbb95797a83
• qiime2__rescript__get_bv_brc_genomes was updated to 1455a998a249
• qiime2__rescript__get_bv_brc_metadata was updated to 96868c887e23
• qiime2__sample_classifier__classify_samples was updated to 5b705adb0526
• qiime2__sample_classifier__classify_samples_from_dist was updated to 871a0738c883
• qiime2__sample_classifier__classify_samples_ncv was updated to 937d0b4d8083
• qiime2__sample_classifier__confusion_matrix was updated to c3126bbd64e4
• qiime2__sample_classifier__fit_classifier was updated to 346c58898c4f
• qiime2__sample_classifier__fit_regressor was updated to 5ff252c32c34
• qiime2__sample_classifier__heatmap was updated to 669259fa60f9
• qiime2__sample_classifier__metatable was updated to 63930077c13a
• qiime2__sample_classifier__predict_classification was updated to c9198aa034be
• qiime2__sample_classifier__predict_regression was updated to 28ae84f5ca57
• qiime2__sample_classifier__regress_samples was updated to 028961beb681
• qiime2__sample_classifier__regress_samples_ncv was updated to f4e0ae35393f
• qiime2__sample_classifier__scatterplot was updated to 880fd4eb20e2
• qiime2__sample_classifier__split_table was updated to 3dfc1a5ca1c1
• qiime2__sample_classifier__summarize was updated to 96543d2f2217
• qiime2__stats__alpha_group_significance was updated to 3fdddccf6aa3
• qiime2__stats__collate_stats was updated to 21a10071136e
• qiime2__stats__facet_across was updated to c745f9361c41
• qiime2__stats__facet_within was updated to e1b35e7c5d18
• qiime2__stats__mann_whitney_u_facet was updated to fcf2e9b633ee
• qiime2__stats__plot_rainclouds was updated to 7e98115bf364
• qiime2__stats__prep_alpha_distribution was updated to 9354e2cf38ed
• qiime2__stats__wilcoxon_srt was updated to a6ac888f23fb
• qiime2__stats__wilcoxon_srt_facet was updated to d680348a37cb
• qiime2__taxa__barplot was updated to 8f3f08228c59
• qiime2__taxa__collapse was updated to f0f9d9b5095d
• qiime2__taxa__filter_seqs was updated to 9d2cb6f48d1d
• qiime2__taxa__filter_table was updated to c9236ca2f9b3
• qiime2__vizard__boxplot was updated to ad23d59c35fb
• qiime2__vizard__heatmap was updated to 22ccbc29ea30
• qiime2__vizard__lineplot was updated to 0b666cc4e746
• qiime2__vizard__scatterplot_2d was updated to 99c30b5f90bb
• qiime2__vsearch__cluster_features_closed_reference was updated to ed0fcc8c5f42
• qiime2__vsearch__cluster_features_de_novo was updated to ec8f8c2f4d54
• qiime2__vsearch__cluster_features_open_reference was updated to 559d1494e258
• qiime2__vsearch__dereplicate_sequences was updated to cef06e59b345
• qiime2__vsearch__fastq_stats was updated to 627decf9330a
• qiime2__vsearch__merge_pairs was updated to e20076e29510
• qiime2__vsearch__uchime_denovo was updated to 37c6c368acdd
• qiime2__vsearch__uchime_ref was updated to b1a6337f9f18
• qiime2_core__tools__export was updated to f83fcc984626
• qiime2_core__tools__import was updated to 65ea76686e11
• qiime2_core__tools__import_fastq was updated to 241bed7043bd

ChemicalToolBox

• openbabel_remove_protonation_state was updated to 00263ca6ffb8

RNA Analysis

• featurecounts was updated to 30f6985f0ac7

Convert Formats

• graphicsmagick_image_compare was updated to 76acb1175c57
• graphicsmagick_image_convert was updated to 8f46605c84ec
• graphicsmagick_image_montage was updated to 601575b847c0

Assembly

• mitohifi was updated to bfab6f5b449d
• fastk_logex was updated to 9b1aebbaec34

FASTA/FASTQ

• gfastats was updated to 59150c883ed5
• trim_galore was updated to b94789823aad

Imaging

• imagej2_bunwarpj_compose_elastic was updated to 6840ce593a91

Evolution

• iqtree was updated to 18a61a9c1601

Single-cell

• bellavista_prepare was updated to 3a5a4f10cef3

Variant Calling

• freebayes was updated to e698621cca1f

None

• data_manager_diamond_database_builder was updated to 4a08b7b76b78