On 2021-10-16, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #295
Text Manipulation
- gff3_rebase was updated to f7ad5e69aa60
ChemicalToolBox
- ambertools_acpype was updated to a0c154146234
- ambertools_antechamber was updated to 4fff93efc0f9
- ambertools_parmchk2 was updated to 7c9bfca84241
- gmx_editconf was updated to 861b2487aaea
- gmx_em was updated to d532b7e5f64b
- gmx_energy was updated to 6dbf73a62977
- gmx_makendx was updated to bff4c37097b5
- gmx_merge_topology_files was updated to 9389cd867cf2
- gmx_restraints was updated to 14a7bf3e03df
- gmx_setup was updated to 1d4dd4f908d4
- gmx_sim was updated to da8753545526
- gmx_solvate was updated to 97b2c06ae168
- gmx_trj was updated to 16fad30d566a
- mmpbsa_mmgbsa was updated to 45dc2555933c
- parmconv was updated to 5a97cb53a456
Variant Calling
- artic_guppyplex was updated to 5ceeb5a5d70f
- bcftools_annotate was updated to 2436e3bef247
- bcftools_call was updated to 5801eff9ac7e
- bcftools_call was updated to 912a8ff07fc9
- bcftools_cnv was updated to 4891338c6c54
- bcftools_concat was updated to 5ee777f9db23
- bcftools_consensus was updated to 92182c270ce4
- bcftools_convert_from_vcf was updated to 7cea7c7bf203
- bcftools_convert_to_vcf was updated to c14b33ab15d8
- bcftools_csq was updated to 8899a6d50699
- bcftools_filter was updated to abafcb875ba6
- bcftools_gtcheck was updated to 39810174657a
- bcftools_isec was updated to 9ece72700ca9
- bcftools_merge was updated to 3e0e55c628b8
- bcftools_mpileup was updated to ce9396ddcb2b
- bcftools_norm was updated to a62e934346f5
- bcftools_norm was updated to ff9e769ccd6c
- bcftools_plugin_color_chrs was updated to 71dfde92fd57
- bcftools_plugin_color_chrs was updated to ebcd8649c621
- bcftools_plugin_frameshifts was updated to 48ac4d611e92
- bcftools_plugin_frameshifts was updated to c0b17fc737d4
- bcftools_query was updated to 3b1b51e1fcba
- bcftools_reheader was updated to b3b3c060962e
- bcftools_roh was updated to d80872078a09
- bcftools_stats was updated to c636e58df612
- bcftools_view was updated to 1d1762860d7e
- deepvariant was updated to b778a18bd878
- gatk4_mutect2 was updated to 53ce8be43212
- snpeff was updated to cfcf33df7fc0
Proteomics
- openms_openpepxl was updated to a2a842b00f9c
- openms_percolatoradapter was updated to 0fc9ae55bcfc
- openms_percolatoradapter was updated to e7881a82b56d
- openms_xfdr was updated to 81402a5e4173
- openms_xfdr was updated to 9a6e3bb0f358
- proteomiqon_labelfreeproteinquantification was updated to 39fa1ddd587d
Quality Control
- trim_galore was updated to cd7e644cae1d
hca_sc_scanpy_tools
- anndata_ops was updated to 52ee45fd7690
- scanpy_compute_graph was updated to 0fe56ddbab0d
- scanpy_filter_cells was updated to b28ba58033ea
- scanpy_filter_genes was updated to 082832adea96
- scanpy_find_cluster was updated to 002f73dae0a7
- scanpy_find_markers was updated to 0fc4e76c5c0d
- scanpy_find_variable_genes was updated to 438a09194001
- scanpy_integrate_bbknn was updated to de8643b6e419
- scanpy_integrate_combat was updated to 0b851815e0b6
- scanpy_integrate_harmony was updated to c8eb5547846b
- scanpy_integrate_mnn was updated to 9724e5ffaa1f
- scanpy_normalise_data was updated to f6a781314ca8
- scanpy_parameter_iterator was updated to 328e7846309d
- scanpy_parameter_iterator was updated to bdd0e28e16bc
- scanpy_plot_embed was updated to c591b2ffc2d7
- scanpy_plot_trajectory was updated to 77985b89bd0a
- scanpy_read_10x was updated to c2fe8568f35f
- scanpy_regress_variable was updated to 3229d550f325
- scanpy_run_diffmap was updated to 83baf6001a10
- scanpy_run_dpt was updated to e274c2d06e53
- scanpy_run_fdg was updated to 02793592e36a
- scanpy_run_paga was updated to 69df3f287281
- scanpy_run_pca was updated to 4fbc4b97090f
- scanpy_run_tsne was updated to 753bf41cc2e3
- scanpy_run_umap was updated to 0da35cd42e7c
- scanpy_scale_data was updated to 4f04a735b26d
Annotation
- funannotate_annotate was updated to a5baa4ff168d
- funannotate_clean was updated to 6298bb90475b
- funannotate_compare was updated to 857f7ac611e1
- funannotate_predict was updated to 1a59958c1f76
- funannotate_sort was updated to 4d3dbaf43243
- homer_annotatepeaks was updated to 38d10a69748a
- homer_findmotifsgenome was updated to 3126da33847c
- homer_gtf_to_annotations was updated to debfd2838aca
- progressivemauve was updated to 4d869208bd52
Graph/Display Data
- circos was updated to 7f13dc906cb9
Convert Formats
- bioext_bam2msa was updated to 0a4ad829d87a
- bioext_bam2msa was updated to 405ed9ad53ab
- samtools_bam_to_cram was updated to 7d3cd2087698
Evolution
- iqtree was updated to 563c3aa769f2
Genome editing
- amplican was updated to 8c1bba8d544a
Assembly
- hifiasm was updated to 045c7c3d8e59
- meryl was updated to eadfd71dde37
- purge_dups was updated to a315c25dc813
- raven was updated to 3edba9afc9bc
- trycycler_cluster was updated to 6f4c8ad6ea01
- trycycler_consensus was updated to 356afed970b4
- trycycler_partition was updated to ebd801e712bc
- trycycler_reconcile_msa was updated to 937ea677d437
- trycycler_subsample was updated to cb4768eeca3b
Mapping
- bioext_bealign was updated to a287431cdf4f
- bwa_mem2 was updated to 88bcfaea2fb6
- minimap2 was updated to 6b1e195506a3
SAM/BAM
- samtools_bedcov was updated to 46c6639921f1
- samtools_calmd was updated to c147e3a10573
- samtools_flagstat was updated to fe34990e5ce7
- samtools_idxstats was updated to 7def34e6cf4d
- samtools_mpileup was updated to 111f83918fe6
- samtools_phase was updated to 1e5880498f52
- samtools_reheader was updated to bb8cfc6f6e0c
- samtools_slice_bam was updated to 344fc91e1bfd
- samtools_sort was updated to 6c2c1836728b
- samtools_split was updated to 5d9ae78f34d3
- samtools_stats was updated to e28839a4b932
- samtools_depth was updated to 2ee8dc1aeda9
- samtools_fastx was updated to 720217c23995
- samtools_fixmate was updated to 595ae1ba934a
- samtools_markdup was updated to d0a568e1904b
- samtools_merge was updated to 8890e2d4c068
- samtools_view was updated to df20f1fd453f
Phylogenetics
- hyphy_absrel was updated to 260a5a236b66
- hyphy_absrel was updated to 26de3a7b1cb9
- hyphy_annotate was updated to 0cd45491b297
- hyphy_annotate was updated to ec59f7a36a24
- hyphy_bgm was updated to 0286ee7cc27d
- hyphy_bgm was updated to a8ea0db2c606
- hyphy_busted was updated to 1e712a6b98ff
- hyphy_busted was updated to d723b65a4291
- hyphy_cfel was updated to 0990351232c6
- hyphy_cfel was updated to 7a86c37f66d1
- hyphy_conv was updated to 1fdaf5c6a59f
- hyphy_conv was updated to e98d40478b3e
- hyphy_fade was updated to 5e8d0e777033
- hyphy_fade was updated to 96817f0fd28b
- hyphy_fel was updated to 1dc833581081
- hyphy_fel was updated to 2b1c3e81add3
- hyphy_fubar was updated to 099fc3ec12d2
- hyphy_gard was updated to 1fb98a84e86d
- hyphy_gard was updated to 45d39a499816
- hyphy_meme was updated to 0052303cfa41
- hyphy_meme was updated to 45a2366d777e
- hyphy_prime was updated to 6d29207a32c5
- hyphy_prime was updated to b044a346c00d
- hyphy_relax was updated to 3415a580926d
- hyphy_slac was updated to 0c6724c345d9
- hyphy_slac was updated to c010cbc8ff3a
- hyphy_sm19 was updated to 23b041c0d7d2
- hyphy_strike_ambigs was updated to 4bf743518e41
- hyphy_strike_ambigs was updated to 650bcc9d3f36
- hyphy_summary was updated to 11fc6218365d
- nextalign was updated to 66f6db4aa19b
- nextclade was updated to 56b1a13d9680
- pangolin was updated to fe3e8506112c
- snp_dists was updated to f78492521996
FASTA/FASTQ
- seqtk was updated to 288f7f69fe25
- seqtk was updated to 3da72230c066
Sanger Sequencing
- tracy_align was updated to 80e3f678b947
- tracy_assemble was updated to 99d31ec6629b
- tracy_basecall was updated to f2e0d83186c7
- tracy_decompose was updated to 6ec40b104f9d
Supported by
