On 2025-11-02, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #537
DNA Metabarcoding
- obi_illumina_pairend was updated to a829941376bd
QIIME 2
- qiime2__alignment__mafft was updated to e02336587671
- qiime2__alignment__mafft_add was updated to d32cbac620eb
- qiime2__alignment__mask was updated to 0dac6571621a
- qiime2__composition__add_pseudocount was updated to 1185eea54073
- qiime2__composition__ancom was updated to 3c2b2ca90687
- qiime2__composition__ancombc was updated to b5fa29d13dfe
- qiime2__composition__tabulate was updated to 73f3d2b2ef5d
- qiime2__cutadapt__demux_paired was updated to 4f5d92bf5022
- qiime2__cutadapt__demux_single was updated to b6b9f569103f
- qiime2__cutadapt__trim_paired was updated to beba70e48270
- qiime2__cutadapt__trim_single was updated to 8406a2475e85
- qiime2__dada2__denoise_ccs was updated to 3e2a146511b0
- qiime2__dada2__denoise_paired was updated to ff047d5ca265
- qiime2__dada2__denoise_pyro was updated to 4ceff2d8736a
- qiime2__dada2__denoise_single was updated to 1601b340fb81
- qiime2__deblur__denoise_16S was updated to 2572fc0f88f2
- qiime2__deblur__denoise_16S was updated to b883cbea5623
- qiime2__deblur__denoise_other was updated to 154377bccc32
- qiime2__deblur__visualize_stats was updated to c26614fbf676
- qiime2__demux__emp_paired was updated to 9f0c454cfc67
- qiime2__demux__emp_single was updated to 0700d9de4f79
- qiime2__demux__filter_samples was updated to 4c13a2d68a2a
- qiime2__demux__subsample_paired was updated to 80dbdff593d3
- qiime2__demux__subsample_single was updated to b3d86150ba46
- qiime2__demux__summarize was updated to 7f656fb2e7b6
- qiime2__diversity__adonis was updated to c7b47e0389c4
- qiime2__diversity__alpha was updated to 77751b6cb583
- qiime2__diversity__alpha_correlation was updated to de37a8df39ef
- qiime2__diversity__alpha_group_significance was updated to 6c0a2e0d1c9e
- qiime2__diversity__alpha_phylogenetic was updated to ecee2e93b8ff
- qiime2__diversity__alpha_rarefaction was updated to 6d56299524df
- qiime2__diversity__beta was updated to b652d07fd0b0
- qiime2__diversity__beta_correlation was updated to 1ef8665d53bd
- qiime2__diversity__beta_group_significance was updated to c499a93403c7
- qiime2__diversity__beta_phylogenetic was updated to 1313ba282b39
- qiime2__diversity__beta_rarefaction was updated to 6b70a31f22ee
- qiime2__diversity__bioenv was updated to 0a462171cef9
- qiime2__diversity__core_metrics was updated to 896e5020ac46
- qiime2__diversity__core_metrics_phylogenetic was updated to 9d7dd5419c37
- qiime2__diversity__filter_alpha_diversity was updated to 552a06f82092
- qiime2__diversity__filter_distance_matrix was updated to 67b434d31e36
- qiime2__diversity__mantel was updated to 7754be6faea0
- qiime2__diversity__pcoa was updated to 93b6e1904c48
- qiime2__diversity__pcoa_biplot was updated to 557efc83549c
- qiime2__diversity__procrustes_analysis was updated to 9db8581e20c5
- qiime2__diversity__tsne was updated to 39f3259394a9
- qiime2__diversity__umap was updated to f6650f28cfdd
- qiime2__diversity_lib__alpha_passthrough was updated to d4f160b179f5
- qiime2__diversity_lib__beta_passthrough was updated to 66dbb2a55bc5
- qiime2__diversity_lib__beta_phylogenetic_meta_passthrough was updated to 62c4d6f83cb4
- qiime2__diversity_lib__beta_phylogenetic_passthrough was updated to 7aa3b7b60718
- qiime2__diversity_lib__bray_curtis was updated to 310c517fdae7
- qiime2__diversity_lib__faith_pd was updated to 95a57e43fe83
- qiime2__diversity_lib__jaccard was updated to ba0a86603997
- qiime2__diversity_lib__observed_features was updated to 19e3205e8206
- qiime2__diversity_lib__pielou_evenness was updated to a8f2491b6f44
- qiime2__diversity_lib__shannon_entropy was updated to 9e06bb95cbc4
- qiime2__diversity_lib__unweighted_unifrac was updated to 042c2da01c39
- qiime2__diversity_lib__weighted_unifrac was updated to 323580d61448
- qiime2__emperor__biplot was updated to 4071af7f8b3e
- qiime2__emperor__plot was updated to fc97edf19d08
- qiime2__emperor__procrustes_plot was updated to c9fb300cbe5d
- qiime2__feature_classifier__blast was updated to f2143eab92d8
- qiime2__feature_classifier__classify_consensus_blast was updated to 76e30b274923
- qiime2__feature_classifier__classify_consensus_vsearch was updated to 404caae7aee0
- qiime2__feature_classifier__classify_hybrid_vsearch_sklearn was updated to 8bea0b8ea0b5
- qiime2__feature_classifier__classify_sklearn was updated to b5ea3e026b8b
- qiime2__feature_classifier__extract_reads was updated to e88709abd32b
- qiime2__feature_classifier__find_consensus_annotation was updated to 75bad78b9f49
- qiime2__feature_classifier__fit_classifier_naive_bayes was updated to 0f26f60d273b
- qiime2__feature_classifier__fit_classifier_sklearn was updated to 39de6b61ab62
- qiime2__feature_classifier__vsearch_global was updated to 2d5672f63c37
- qiime2__feature_table__core_features was updated to 9c8b1fece8fd
- qiime2__feature_table__filter_features was updated to 5545c2f27907
- qiime2__feature_table__filter_features_conditionally was updated to 1469676328d1
- qiime2__feature_table__filter_samples was updated to 1a301c51abd8
- qiime2__feature_table__filter_seqs was updated to c6ed847508fe
- qiime2__feature_table__group was updated to 74d56f1a8848
- qiime2__feature_table__heatmap was updated to c5e2e5d0d5ca
- qiime2__feature_table__merge was updated to bbf262bb1d96
- qiime2__feature_table__merge_seqs was updated to 3be5dcb0a170
- qiime2__feature_table__merge_taxa was updated to 6ed7639065df
- qiime2__feature_table__presence_absence was updated to 09b75d1c5e9f
- qiime2__feature_table__rarefy was updated to 029d061dfadd
- qiime2__feature_table__relative_frequency was updated to 46b504ccef4d
- qiime2__feature_table__rename_ids was updated to e662400df0f5
- qiime2__feature_table__summarize was updated to 4d8369756ee6
- qiime2__feature_table__tabulate_seqs was updated to a0b9e63b06c7
- qiime2__feature_table__transpose was updated to da1277b5baa0
- qiime2__fragment_insertion__classify_otus_experimental was updated to e998fbee3497
- qiime2__fragment_insertion__filter_features was updated to 732d8eaa92d0
- qiime2__fragment_insertion__sepp was updated to 4342c148f53e
- qiime2__longitudinal__anova was updated to ec4e85d3e470
- qiime2__longitudinal__feature_volatility was updated to 4be01a151df1
- qiime2__longitudinal__first_differences was updated to ff88523d6c19
- qiime2__longitudinal__first_distances was updated to 9c84d0f2f236
- qiime2__longitudinal__linear_mixed_effects was updated to 3e1fbb7cfcf8
- qiime2__longitudinal__maturity_index was updated to d52f4bfb42d0
- qiime2__longitudinal__nmit was updated to 2500b1578ba9
- qiime2__longitudinal__pairwise_differences was updated to f38a94d12951
- qiime2__longitudinal__pairwise_distances was updated to 58067e34dc76
- qiime2__longitudinal__plot_feature_volatility was updated to 2b9f0231bebb
- qiime2__longitudinal__volatility was updated to bb6ec39e5c79
- qiime2__metadata__distance_matrix was updated to 47d297960b53
- qiime2__metadata__shuffle_groups was updated to 224daabc19ab
- qiime2__metadata__tabulate was updated to 40c226302c86
- qiime2__phylogeny__align_to_tree_mafft_fasttree was updated to 3200ba93ca77
- qiime2__phylogeny__align_to_tree_mafft_iqtree was updated to ed4ab852f350
- qiime2__phylogeny__align_to_tree_mafft_raxml was updated to e534f88ab7bd
- qiime2__phylogeny__fasttree was updated to 03920b01d7b9
- qiime2__phylogeny__filter_table was updated to 4b5eb2ac46bc
- qiime2__phylogeny__filter_tree was updated to 5f4032d783ff
- qiime2__phylogeny__iqtree was updated to b124e57694c3
- qiime2__phylogeny__iqtree_ultrafast_bootstrap was updated to 9992ba830384
- qiime2__phylogeny__midpoint_root was updated to d200ecb7eaf5
- qiime2__phylogeny__raxml was updated to 0cec778b9465
- qiime2__phylogeny__raxml_rapid_bootstrap was updated to 9e253cbabb83
- qiime2__phylogeny__robinson_foulds was updated to 5fb18930a718
- qiime2__quality_control__bowtie2_build was updated to 12eb35874f85
- qiime2__quality_control__evaluate_composition was updated to c08e850ea0df
- qiime2__quality_control__evaluate_seqs was updated to 4d3670c5d547
- qiime2__quality_control__evaluate_taxonomy was updated to 6ac8433f95ec
- qiime2__quality_control__exclude_seqs was updated to d325b51a7a0f
- qiime2__quality_control__filter_reads was updated to f730b55fe13b
- qiime2__quality_filter__q_score was updated to 5b1a8a2ec0a5
- qiime2__rescript__get_bv_brc_genome_features was updated to 934e5786eac2
- qiime2__rescript__get_bv_brc_genomes was updated to 5f011c50a9dc
- qiime2__rescript__get_bv_brc_metadata was updated to 2f4b6eaa0c0e
- qiime2__sample_classifier__classify_samples was updated to cfd6952cf0c9
- qiime2__sample_classifier__classify_samples_from_dist was updated to 82b539cf4e59
- qiime2__sample_classifier__classify_samples_ncv was updated to 8ab60282cf94
- qiime2__sample_classifier__confusion_matrix was updated to 23efa65f2a74
- qiime2__sample_classifier__fit_classifier was updated to bcd13449c2d5
- qiime2__sample_classifier__fit_regressor was updated to ed9dfc9e5e9a
- qiime2__sample_classifier__heatmap was updated to 145c578578ef
- qiime2__sample_classifier__metatable was updated to e4a5794fc6dd
- qiime2__sample_classifier__predict_classification was updated to 15c9178c2b50
- qiime2__sample_classifier__predict_regression was updated to b615e7adb4a9
- qiime2__sample_classifier__regress_samples was updated to fc1a36831fcd
- qiime2__sample_classifier__regress_samples_ncv was updated to fc42b9f62d2b
- qiime2__sample_classifier__scatterplot was updated to 1d0027a2d7fa
- qiime2__sample_classifier__split_table was updated to a3f644e241e6
- qiime2__sample_classifier__summarize was updated to 49857187c4b2
- qiime2__stats__alpha_group_significance was updated to 46bf2409da02
- qiime2__stats__collate_stats was updated to c7f0375dcd87
- qiime2__stats__facet_across was updated to e5f20ff291a3
- qiime2__stats__facet_within was updated to 5351cfc436ea
- qiime2__stats__mann_whitney_u_facet was updated to a512d81dc095
- qiime2__stats__plot_rainclouds was updated to d8f5637f7e07
- qiime2__stats__prep_alpha_distribution was updated to 3bd5cc9912b2
- qiime2__stats__wilcoxon_srt was updated to 5b5c7adbe67e
- qiime2__stats__wilcoxon_srt_facet was updated to 8305555fcc10
- qiime2__taxa__barplot was updated to d29295070ccd
- qiime2__taxa__collapse was updated to 9ae5f88dc548
- qiime2__taxa__filter_seqs was updated to 15c4e0368ea1
- qiime2__taxa__filter_table was updated to 21ac815b20a1
- qiime2__vizard__boxplot was updated to ee2831f791a2
- qiime2__vizard__heatmap was updated to ff6bc1bb5c9c
- qiime2__vizard__lineplot was updated to 6f57b18f8aef
- qiime2__vizard__scatterplot_2d was updated to c3540e222d97
- qiime2__vsearch__cluster_features_closed_reference was updated to 2ccaf5eafe27
- qiime2__vsearch__cluster_features_de_novo was updated to 58d133c81018
- qiime2__vsearch__cluster_features_open_reference was updated to aca054578114
- qiime2__vsearch__dereplicate_sequences was updated to e4bde84c3ade
- qiime2__vsearch__fastq_stats was updated to e1035800aad8
- qiime2__vsearch__merge_pairs was updated to 02137c034346
- qiime2__vsearch__uchime_denovo was updated to e74ca9ba4da5
- qiime2__vsearch__uchime_ref was updated to c6f9527d0b47
- qiime2_core__tools__export was updated to 6d6617a57925
- qiime2_core__tools__import was updated to 52a1f79f0941
- qiime2_core__tools__import_fastq was updated to 0bd8b25a5bfb
Annotation
- staramr was updated to eaa563bd535a
- ncbi_fcs_adaptor was updated to d55ad8533d58
FASTA/FASTQ
- seqkit_translate was updated to 1936d097808a
- cutadapt was updated to 8e264b67a8c0
- rdeval was updated to 37d67c252fed
Graph/Display Data
- wordcloud was updated to 6055ffae8903
Imaging
- bia_download was updated to 7d6c91adc1fd
- imagemagick_image_montage was updated to 65703c06c1f6
Convert Formats
- tooldistillator was updated to a5ef8d31c40e
- tooldistillator_summarize was updated to a4506449c300
Metagenomic Analysis
- mash_dist was updated to c932095af671
- mash_paste was updated to e0c0fda064eb
- semibin was updated to afee33334a63
- semibin_bin was updated to 8428eb03a349
- semibin_concatenate_fasta was updated to a72b974c98a2
- semibin_generate_cannot_links was updated to fd17362def4f
- semibin_generate_sequence_features was updated to 517069eeb0d5
- semibin_train was updated to 3215ab8a94de
Phenotype Association
- gemma was updated to cd8c5aebb404
Phylogenetics
- pangolin was updated to c092a2f58013
Quality Control
- fileidentification was updated to 639d81cf8ac8
RNA Analysis
- salmon was updated to 30d90b851d3c
- salmonquantmerge was updated to 71ce24befa24
Single-cell
- alevin was updated to 528052085629
Variant Calling
- bcftools_call was updated to 072f606e2e69
None
- data_manager_diamond_database_builder was updated to 4a08b7b76b78
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