On 2025-03-17, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #505

ChemicalToolBox

• apoc was updated to 451f90534945
• apoc was updated to f7eb699686eb
• smina was updated to 3c170cc50eeb
• smina was updated to cf657dae1dca
• qcxms_production_run was updated to e97bfe7ac906

QIIME 2

• qiime2__deblur__denoise_16S was updated to 2572fc0f88f2
• qiime2__deblur__denoise_16S was updated to b883cbea5623

Assembly

• hifiasm was updated to 170061c052ad
• pairtools_dedup was updated to c162f3c43442
• pairtools_parse was updated to 963d674e438d
• pairtools_sort was updated to 5fd78abb0d81
• pairtools_split was updated to a7035be049e4
• pairtools_stats was updated to ade829d2ae3a
• rnaspades was updated to 001aa495b39a
• spades_biosyntheticspades was updated to 60b8f1668552
• spades_coronaspades was updated to 152ff7d1817a
• spades_metaplasmidspades was updated to c5c4fa59be65
• spades_metaviralspades was updated to 6766a94ef559
• spades_plasmidspades was updated to b40b77418372
• spades_rnaviralspades was updated to a9aa4115cb68
• metaspades was updated to 697c9156dafe
• spades was updated to b512435320e3

Convert Formats

• msconvert was updated to 331a50e8fd2f
• bam2fastx was updated to 43fd2ba63c16
• ucsc_chainantirepeat was updated to 91674d4623a8

FASTA/FASTQ

• gfastats was updated to 50b6ec4074f4

Imaging

• cellpose was updated to 5251ce4c4a11

None

• data_manager_deeparg was updated to 50f4ff01d845
• data_manager_diamond_database_builder was updated to 4a08b7b76b78
• data_manager_funannotate_options was updated to e22da646fed7

Annotation

• funannotate_compare was updated to 7f8f38e27dee
• funannotate_predict was updated to 3cc3ef448854
• omark was updated to ceb52582a5b1

Evolution

• revoluzer_crex was updated to 43af02990a47
• revoluzer_distmat was updated to 68a8e02e23bb

Get Data

• ensembl_get_genetree was updated to 667fd2d7a350
• ncbi_datasets was updated to 40a5d68e929a

Mapping

• pbmm2 was updated to bf5e9702061a

Metagenomic Analysis

• metawrapmg_binning was updated to 6f7211f93b06
• bracken was updated to 4d350ac5148e
• decontam was updated to 4a72acf1cd75
• gtdbtk_classify_wf was updated to c30adf839acd
• phyloseq_add_rank_names was updated to 61af11a54bc8
• phyloseq_from_biom was updated to 04ba1fa0fe57
• phyloseq_from_dada2 was updated to 6000b8a8dd9d
• phyloseq_plot_bar was updated to 8a9c340debc8
• phyloseq_plot_ordination was updated to 32f892954ef6
• phyloseq_plot_richness was updated to 10a7732528b2
• recentrifuge was updated to 612df2a5054f

Mothur

• mothur_venn was updated to 139bdc1c3b48

Phylogenetics

• ete was updated to e4d5d9a69c9d
• gafa was updated to c22276db4025
• hcluster_sg was updated to 1d2de27d7a9c
• hcluster_sg was updated to 4d60b0cd146c
• t_coffee was updated to ae69d14b6fbf
• t_coffee was updated to ce83c3f83561
• treebest_best was updated to b78b529f66db
• treebest_best was updated to d0569a198359
• squirrel_phylo was updated to f793ae405fd1
• squirrel_qc was updated to e4f6590015d4

Variant Calling

• freebayes was updated to 1e1291983bc7

Virology

• ivar_consensus was updated to 253935875d96
• ivar_filtervariants was updated to 0d2639b4f40a
• ivar_removereads was updated to 55a7867809f4
• ivar_trim was updated to 7bd020da0ce5
• ivar_variants was updated to 1ef68546d37f