UseGalaxy.eu Tool Updates for 2019-12-14

December 14, 2019

On 2019-12-14, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in Jenkins Build #169

Statistics

graphembed was updated to f28678233baf

Assembly

abyss was updated to 3ce74eab308b

Convert Formats

resize_coordinate_window was updated to 4eb3cc1f8466

Mothur

mothur_align_check was updated to 0399e5aeaac6
mothur_align_seqs was updated to 152ae632ab19
mothur_amova was updated to a781ac710ec3
mothur_amova was updated to d0074e20ae76
mothur_anosim was updated to 947036da99f2
mothur_anosim was updated to 98687b00be79
mothur_bin_seqs was updated to 4bf939e17fa4
mothur_chimera_bellerophon was updated to b6ddaa19dba3
mothur_chimera_bellerophon was updated to cf1db89b0fda
mothur_chimera_ccode was updated to 6e2e58e07e0f
mothur_chimera_ccode was updated to b6e0f8a9bc6b
mothur_chimera_check was updated to 4b57c3241cbc
mothur_chimera_perseus was updated to 0f3baac24045
mothur_chimera_pintail was updated to 93b61db8bdb6
mothur_chimera_slayer was updated to 753321ddded9
mothur_chimera_uchime was updated to ac246f061fd5
mothur_chimera_uchime was updated to f1742cf23d95
mothur_chop_seqs was updated to 29f963e785a0
mothur_classify_otu was updated to c384c39c9c27
mothur_classify_otu was updated to ec7c3ecca41a
mothur_classify_seqs was updated to 2f5d4d86eb9a
mothur_classify_tree was updated to 9046e85ccaf6
mothur_classify_tree was updated to fec1c905cb22
mothur_clearcut was updated to 7ad44d831a1f
mothur_cluster was updated to 5ea1f1f9d801
mothur_cluster_classic was updated to 2825bfdfee39
mothur_cluster_classic was updated to a649d3ca67b7
mothur_cluster_fragments was updated to 5fa9b6d481f6
mothur_cluster_split was updated to a9924d4f538f
mothur_collect_shared was updated to 44d5c9ba72e6
mothur_collect_single was updated to ba873a97b0ac
mothur_collect_single was updated to d3b196069f6f
mothur_consensus_seqs was updated to b114aeea6c4c
mothur_consensus_seqs was updated to bc2b62823fcc
mothur_cooccurrence was updated to 0e05f58541d0
mothur_corr_axes was updated to 0c76942a61e2
mothur_corr_axes was updated to 1ba1fe2a0438
mothur_count_groups was updated to 28867c3771e1
mothur_count_seqs was updated to 59a962f57cb5
mothur_create_database was updated to 319884cd49a3
mothur_degap_seqs was updated to 104cea550c2f
mothur_degap_seqs was updated to 2393ecc7387c
mothur_deunique_seqs was updated to 73aeeac872d7
mothur_deunique_tree was updated to 2b96ca0b44c0
mothur_deunique_tree was updated to ec5e03c0f18e
mothur_dist_seqs was updated to 502323efbd82
mothur_dist_shared was updated to 1a899fec55e1
mothur_fastq_info was updated to 1edab4936153
mothur_filter_seqs was updated to b587a3a485b8
mothur_filter_shared was updated to 007311ce6297
mothur_get_communitytype was updated to 4e708ec53432
mothur_get_coremicrobiome was updated to 42244e3619cf
mothur_get_dists was updated to 4d0f7df5a8f8
mothur_get_dists was updated to c8fbbada97dc
mothur_get_group was updated to 081d0fbf9751
mothur_get_groups was updated to cfeef38a433e
mothur_get_groups was updated to e4d70a26c19f
mothur_get_label was updated to 78e5065b27bd
mothur_get_label was updated to 80b791e2a7bd
mothur_get_lineage was updated to 563718e09fa8
mothur_get_mimarkspackage was updated to 49f2db40374d
mothur_get_mimarkspackage was updated to 6dbc31423c24
mothur_get_otulabels was updated to b847275dfdf2
mothur_get_otulabels was updated to fd62ac4a6b84
mothur_get_otulist was updated to a68c119c37c5
mothur_get_otulist was updated to f0cf508cdc98
mothur_get_oturep was updated to 782220733828
mothur_get_oturep was updated to f821624d355c
mothur_get_otus was updated to 8a67e60260ca
mothur_get_rabund was updated to 08a740b388d8
mothur_get_rabund was updated to bd695645069f
mothur_get_relabund was updated to b07e7be6326a
mothur_get_sabund was updated to 0bc1dc0c6aad
mothur_get_sabund was updated to a41ba5f5f6b8
mothur_get_seqs was updated to 32a95d4cd850
mothur_get_seqs was updated to 8b8c7cf6738c
mothur_get_sharedseqs was updated to 67faa6dacbae
mothur_heatmap_bin was updated to 83d3c6dba0b1
mothur_heatmap_sim was updated to 2f93c7bba6f8
mothur_heatmap_sim was updated to c2dead9d38c4
mothur_homova was updated to 948d5731dbe0
mothur_indicator was updated to 39750697d7a6
mothur_lefse was updated to c98e47f7b233
mothur_lefse was updated to d47a909185ef
mothur_libshuff was updated to 45a78bb8819d
mothur_list_otulabels was updated to 72c4cd2b5b74
mothur_list_otulabels was updated to e643cc6c39cb
mothur_list_seqs was updated to 0ad4a88e6314
mothur_list_seqs was updated to 9b600578c108
mothur_make_biom was updated to cfdfa41e01a4
mothur_make_biom was updated to e29c05b88096
mothur_make_contigs was updated to c3203178c41f
mothur_make_contigs was updated to f65c34178487
mothur_make_design was updated to 4405d0fbfada
mothur_make_fastq was updated to 1684157db3c1
mothur_make_group was updated to 182b471ed56b
mothur_make_lefse was updated to 2da52b4bf3dc
mothur_make_lefse was updated to 88be2167f369
mothur_make_shared was updated to 60f0853e33f3
mothur_make_sra was updated to afa357a7b58a
mothur_make_sra was updated to bf608ff56ecf
mothur_mantel was updated to 3179a29d3b70
mothur_mantel was updated to bcc475f1af4a
mothur_merge_files was updated to 21a9274337f5
mothur_merge_groups was updated to 47d3c31340d7
mothur_merge_groups was updated to f170676a1d12
mothur_merge_sfffiles was updated to 0778c4b6a300
mothur_merge_sfffiles was updated to 26ddda2d2462
mothur_merge_taxsummary was updated to 3a2ee62cb710
mothur_metastats was updated to f50fa0018f6f
mothur_metastats was updated to fe9f4a0d61d3
mothur_mimarks_attributes was updated to 7986e1c4bc23
mothur_mimarks_attributes was updated to 8354a02a83e1
mothur_nmds was updated to 3cc04a065490
mothur_normalize_shared was updated to 5a00f7d92dc2
mothur_normalize_shared was updated to a8bc62f05cfa
mothur_otu_association was updated to 12af8c375bb8
mothur_otu_association was updated to a2511c40e7b8
mothur_otu_hierarchy was updated to 693fbc55f70e
mothur_pairwise_seqs was updated to 39c7213ca279
mothur_pairwise_seqs was updated to 4a73df58d56b
mothur_parse_list was updated to 59906aed724a
mothur_parse_list was updated to 99579d05a632
mothur_parsimony was updated to da7f70ebfb4c
mothur_parsimony was updated to fd6cebeaa143
mothur_pca was updated to 74d1b765843b
mothur_pcoa was updated to 1c1d69d94f7d
mothur_pcoa was updated to 485e149a8aba
mothur_pcr_seqs was updated to 0a23bfe005be
mothur_phylo_diversity was updated to c7d41770f4ce
mothur_phylotype was updated to 249cdeb3cdb1
mothur_phylotype was updated to 551a2d9c0aa7
mothur_pre_cluster was updated to baba9fff9dba
mothur_pre_cluster was updated to d848e23e9343
mothur_primer_design was updated to 487977c2c586
mothur_rarefaction_shared was updated to 325ecaad64c0
mothur_rarefaction_shared was updated to 50312cd2fc7a
mothur_rarefaction_single was updated to 5c2157147393
mothur_rarefaction_single was updated to b5bcc4bf53d1
mothur_remove_dists was updated to 11795a719c90
mothur_remove_groups was updated to 2d5258c52be0
mothur_remove_groups was updated to 3fac82ad3f01
mothur_remove_lineage was updated to 2a4d6c3d9b6d
mothur_remove_otulabels was updated to 2cbf56d15f4b
mothur_remove_otulabels was updated to 5133ef623148
mothur_remove_otus was updated to 38c03ac3d622
mothur_remove_rare was updated to 2531a323f0c2
mothur_remove_seqs was updated to 92eb629218e1
mothur_remove_seqs was updated to eec15ff2d3c9
mothur_reverse_seqs was updated to db762c766b89
mothur_reverse_seqs was updated to f7f5cd1ae299
mothur_screen_seqs was updated to 595419d427b6
mothur_screen_seqs was updated to a136fc12b26a
mothur_sens_spec was updated to 084dc4e8caae
mothur_sens_spec was updated to c3f0b847dc40
mothur_seq_error was updated to 2851c368b879
mothur_shhh_flows was updated to 4e6cdbeaf3b5
mothur_shhh_seqs was updated to 151a711dec84
mothur_shhh_seqs was updated to aa189387c19c
mothur_sort_seqs was updated to 2f6a9498447e
mothur_sort_seqs was updated to 334476d3e35d
mothur_split_abund was updated to 3a364dd93195
mothur_split_abund was updated to fa40dca23957
mothur_split_groups was updated to 627cf4d36194
mothur_split_groups was updated to 99c44fc3cd32
mothur_sub_sample was updated to 0f4dfa0332e8
mothur_summary_qual was updated to 11be0e5f3ebb
mothur_summary_seqs was updated to 4041dc69af62
mothur_summary_shared was updated to 47370a4efc95
mothur_summary_shared was updated to 81df36f90a1b
mothur_summary_single was updated to 72be09dfd803
mothur_summary_tax was updated to 4db7f1329d0e
mothur_summary_tax was updated to c07510858fb0
mothur_tree_shared was updated to 73dd30cbca20
mothur_tree_shared was updated to af2b5be87d4f
mothur_trim_flows was updated to 45f3904bfdd2
mothur_trim_seqs was updated to dc318dec8b86
mothur_unifrac_unweighted was updated to 46ba42ec466b
mothur_unifrac_unweighted was updated to 6a622b34394a
mothur_unifrac_weighted was updated to 20bc6be9e1df
mothur_unifrac_weighted was updated to 7cb9b120fd44
mothur_unique_seqs was updated to 84722a5b79af
mothur_venn was updated to 200defe4c42b

Proteomics

cardinal_classification was updated to 42f6e30b00f2
cardinal_combine was updated to b41107d8fe89
cardinal_data_exporter was updated to 90d2e00e1304
cardinal_filtering was updated to 528fb09022be
cardinal_mz_images was updated to 27a4c660bbca
cardinal_mz_images was updated to 4a05e47cd0ea
cardinal_preprocessing was updated to ed9ed1e6cca2
cardinal_quality_report was updated to 19f68d9ae773
cardinal_segmentations was updated to b16b64ca7b7c
cardinal_spectra_plots was updated to f17b01ec5c22

Motif Tools

meme_fimo was updated to 0c5239d1aa65
meme_meme was updated to 3f0dd362b755
meme_psp_gen was updated to ff2f53a32d0e

Metagenomic Analysis

cat_add_names was updated to 13192095fd5a
cat_bins was updated to 0094893f5001
cat_contigs was updated to 11a61934bfb3
cat_prepare was updated to b6c5e7343617
cat_summarise was updated to db1360aae489
dada2_assigntaxonomyaddspecies was updated to 4d89978c6188
dada2_dada was updated to 6b4ddc3b64bd
dada2_filterandtrim was updated to 777f9846c56d
dada2_learnerrors was updated to 39638e0aff59
dada2_makesequencetable was updated to 9ccec6ed8e82
dada2_mergepairs was updated to b1e55c248f17
dada2_plotcomplexity was updated to 498d57610fcd
dada2_plotqualityprofile was updated to fa11922f3d91
dada2_removebimeradenovo was updated to 7f8f0e9fcb37
dada2_seqcounts was updated to 4cc834cce4fb

Get Data

ncbi_acc_download was updated to 1c58de56d587

RAD-seq

stacks2_cstacks was updated to c541e62d6c56

Graph/Display Data

bandage was updated to b2860df42e16
circos was updated to fd59d783248a
newick_utils was updated to b4163d2f64ab

DNA Metabarcoding

obi_annotate was updated to 3021b9f5809f
obi_clean was updated to 7d16de45c021
obi_convert was updated to 4d705e3443a7
obi_grep was updated to e9e49cf06b42
obi_illumina_pairend was updated to 94f412098ac8
obi_ngsfilter was updated to 76e69de726b2
obi_sort was updated to 12b9e285ca1c
obi_stat was updated to 39320fee9d70
obi_tab was updated to 3299c7d5268f
obi_uniq was updated to c0f7b58b4ce4

Data Managers

data_manager_cat was updated to cffd8e2382cf
data_manager_salmon_index_builder was updated to 57274fe5e01a

Variant Calling

snippy was updated to 32f2211eeec3
variant_analyzer was updated to 3556001ff2db

RNA Analysis

masigpro was updated to 83f8b5ceff43
migmap was updated to 587fa797ede9
seurat was updated to 7319f83ae734
tximport was updated to 206a71a69161

NCBI Blast

taxonomy_krona_chart was updated to 1334cb4c6b68
kraken was updated to aec58624706f
kraken_filter was updated to 3d6570bffdb1
kraken_report was updated to 1902d3de4a4f
kraken_translate was updated to 9a5be5b1a5c9

EMBOSS

emboss_5 was updated to dba489bfcd62

Genome Diversity

fasttree was updated to ef46a404db96

Annotation

repeat_masker was updated to d7540a923c7b
prokka was updated to 3a0bd09a41dd
fargene was updated to 239ce9f24386
fargene was updated to 6f743c615c41

Single-cell

anndata_export was updated to e0395cca2c57
anndata_import was updated to e175d4067b00
anndata_inspect was updated to 6a1a3dab235a
anndata_manipulate was updated to a56baceb1900
scanpy_cluster_reduce_dimension was updated to ac8e59e87ce3
scanpy_cluster_reduce_dimension was updated to dc2de14881ba
scanpy_filter was updated to 0a6de5e65992
scanpy_filter was updated to e62673c32a5d
scanpy_inspect was updated to 7d22964a8639
scanpy_inspect was updated to cc0deb593fc8
scanpy_normalize was updated to 8e0f141c8c66
scanpy_normalize was updated to d7ea9b5e6df1
scanpy_plot was updated to 4bfb75bb7c8e
scanpy_plot was updated to a8f865950ac4
scanpy_remove_confounders was updated to 00305dc2dd6f
scanpy_remove_confounders was updated to 94c8f42efc47

SAM/BAM

bamtools was updated to 4d343c1f606b
bamtools_split was updated to 9676127a1ed2
samtool_filter2 was updated to 649a225999a5