From b6c0d704e1e50d7e2dfddba4c0fa5bf35738c265 Mon Sep 17 00:00:00 2001 From: admin Date: Wed, 3 Jun 2026 05:50:24 +0000 Subject: [PATCH] New and updated tools 2026-06-03 --- _posts/2026-06-03-tool-updates.md | 52 +++++++++++++++++++++++++++++++ 1 file changed, 52 insertions(+) create mode 100644 _posts/2026-06-03-tool-updates.md diff --git a/_posts/2026-06-03-tool-updates.md b/_posts/2026-06-03-tool-updates.md new file mode 100644 index 000000000..1afa59048 --- /dev/null +++ b/_posts/2026-06-03-tool-updates.md @@ -0,0 +1,52 @@ +--- +site: freiburg +title: 'Galaxy Australia tool updates 2026-06-03' +tags: [tools] +supporters: + - galaxyaustralia + - melbinfo + - qcif +--- + + + + +### Tools installed + +| Section | Tool | +|---------|-----| +| **Annotation** | ncbi_fcs_adaptor [d55ad8533d58](https://toolshed.g2.bx.psu.edu/view/richard-burhans/ncbi_fcs_adaptor/d55ad8533d58) | +| **Nanopore** | dorado_demux [68c9fbc8c840](https://toolshed.g2.bx.psu.edu/view/galaxy-australia/dorado_demux/68c9fbc8c840) | +| **QIIME 2** | qiime2_core__tools__import_fastq [87623807fced](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2_core__tools__import_fastq/87623807fced)
qiime2__diversity__filter_alpha_diversity [c2b3f86034a1](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__filter_alpha_diversity/c2b3f86034a1)
qiime2__rescript__get_bv_brc_genome_features [35d2552c4318](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__rescript__get_bv_brc_genome_features/35d2552c4318)
qiime2__rescript__get_bv_brc_genomes [40b49b7051de](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__rescript__get_bv_brc_genomes/40b49b7051de)
qiime2__rescript__get_bv_brc_metadata [1b1d508e0792](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__rescript__get_bv_brc_metadata/1b1d508e0792)
qiime2__stats__alpha_group_significance [d6f4c80a29a2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__stats__alpha_group_significance/d6f4c80a29a2)
qiime2__stats__collate_stats [13b4fb6c0d8c](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__stats__collate_stats/13b4fb6c0d8c)
qiime2__stats__facet_across [971966a01e22](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__stats__facet_across/971966a01e22)
qiime2__stats__facet_within [838be8534dce](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__stats__facet_within/838be8534dce)
qiime2__stats__mann_whitney_u_facet [3860c369685d](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__stats__mann_whitney_u_facet/3860c369685d)
qiime2__stats__plot_rainclouds [02a662eeb51e](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__stats__plot_rainclouds/02a662eeb51e)
qiime2__stats__prep_alpha_distribution [69bbf46edd90](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__stats__prep_alpha_distribution/69bbf46edd90)
qiime2__stats__wilcoxon_srt [3eeb66ec76de](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__stats__wilcoxon_srt/3eeb66ec76de)
qiime2__stats__wilcoxon_srt_facet [181c3cf66bd8](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__stats__wilcoxon_srt_facet/181c3cf66bd8)
qiime2__vizard__boxplot [9914bc7639bf](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vizard__boxplot/9914bc7639bf)
qiime2__vizard__heatmap [45c348a09fa0](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vizard__heatmap/45c348a09fa0)
qiime2__vizard__lineplot [df9f1ff48c29](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vizard__lineplot/df9f1ff48c29)
qiime2__vizard__scatterplot_2d [acada7129b61](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vizard__scatterplot_2d/acada7129b61) | +| **SAM/BAM** | bamutil_clip_overlap [047a20d4258f](https://toolshed.g2.bx.psu.edu/view/iuc/bamutil_clip_overlap/047a20d4258f) | + +### Tools updated + +| Section | Tool | +|---------|-----| +| **Annotation** | abritamr [ce54031c2235](https://toolshed.g2.bx.psu.edu/view/iuc/abritamr/ce54031c2235)
prokka [c105b66eaab1](https://toolshed.g2.bx.psu.edu/view/crs4/prokka/c105b66eaab1) | +| **FASTA/FASTQ** | rdeval [058bb29e28ba](https://toolshed.g2.bx.psu.edu/view/richard-burhans/rdeval/058bb29e28ba) | +| **FASTQ Quality Control** | multiqc [fac2260bc88a](https://toolshed.g2.bx.psu.edu/view/iuc/multiqc/fac2260bc88a) | +| **HiCExplorer** | hicexplorer_hicbuildmatrix [453619f40b89](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicbuildmatrix/453619f40b89)
hicexplorer_hicfindtads [7b9fa42ca59c](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicfindtads/7b9fa42ca59c)
hicexplorer_hicmergematrixbins [7011782fdbaf](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicmergematrixbins/7011782fdbaf)
hicexplorer_hicpca [b03f8b95b08c](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicpca/b03f8b95b08c)
hicexplorer_hicplotmatrix [eb3a1b9a1c3c](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicplotmatrix/eb3a1b9a1c3c) | +| **Metagenomic Analysis** | concoct [396cce609c04](https://toolshed.g2.bx.psu.edu/view/iuc/concoct/396cce609c04)
concoct_coverage_table [6a9c82cc3448](https://toolshed.g2.bx.psu.edu/view/iuc/concoct_coverage_table/6a9c82cc3448)
concoct_cut_up_fasta [7a5598f973c9](https://toolshed.g2.bx.psu.edu/view/iuc/concoct_cut_up_fasta/7a5598f973c9)
concoct_extract_fasta_bins [d87b60b2ed78](https://toolshed.g2.bx.psu.edu/view/iuc/concoct_extract_fasta_bins/d87b60b2ed78)
concoct_merge_cut_up_clustering [28b4b21d6aae](https://toolshed.g2.bx.psu.edu/view/iuc/concoct_merge_cut_up_clustering/28b4b21d6aae) | +| **Nanopore** | nanoplot [640e4eeab4e2](https://toolshed.g2.bx.psu.edu/view/iuc/nanoplot/640e4eeab4e2) | +| **Phylogenetics** | raxml [dc97e1b45938](https://toolshed.g2.bx.psu.edu/view/iuc/raxml/dc97e1b45938) | +| **QIIME 2** | qiime2__alignment__mafft_add [3c8af46b66c9](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__alignment__mafft_add/3c8af46b66c9)
qiime2__alignment__mafft [e7746c84c60d](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__alignment__mafft/e7746c84c60d)
qiime2__alignment__mask [4facd8fa09a6](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__alignment__mask/4facd8fa09a6)
qiime2__composition__add_pseudocount [8cc448683483](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__composition__add_pseudocount/8cc448683483)
qiime2__composition__ancom [6114b42d3e92](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__composition__ancom/6114b42d3e92)
qiime2__composition__ancombc [46a04223b59c](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__composition__ancombc/46a04223b59c)
qiime2__composition__tabulate [397af24f4bb3](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__composition__tabulate/397af24f4bb3)
qiime2_core__tools__export [b6e4d26e4e7a](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2_core__tools__export/b6e4d26e4e7a)
qiime2_core__tools__import [95475922280e](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2_core__tools__import/95475922280e)
qiime2__cutadapt__demux_paired [691d22c2a628](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__cutadapt__demux_paired/691d22c2a628)
qiime2__cutadapt__demux_single [37b9ab6237b3](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__cutadapt__demux_single/37b9ab6237b3)
qiime2__cutadapt__trim_paired [7a93cef64ba7](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__cutadapt__trim_paired/7a93cef64ba7)
qiime2__cutadapt__trim_single [5a9171c06d72](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__cutadapt__trim_single/5a9171c06d72)
qiime2__dada2__denoise_ccs [312e59448469](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__dada2__denoise_ccs/312e59448469), [c0de44a3c93f](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__dada2__denoise_ccs/c0de44a3c93f)
qiime2__dada2__denoise_paired [569b33f54ed0](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__dada2__denoise_paired/569b33f54ed0)
qiime2__dada2__denoise_pyro [72a77c0fc44b](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__dada2__denoise_pyro/72a77c0fc44b)
qiime2__dada2__denoise_single [e8bc729e0118](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__dada2__denoise_single/e8bc729e0118)
qiime2__deblur__denoise_other [caba6b5c3f31](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__deblur__denoise_other/caba6b5c3f31)
qiime2__deblur__visualize_stats [3459b9ebf363](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__deblur__visualize_stats/3459b9ebf363)
qiime2__demux__emp_paired [14b64f3aecc0](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__demux__emp_paired/14b64f3aecc0)
qiime2__demux__emp_single [ab32ff3e8409](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__demux__emp_single/ab32ff3e8409)
qiime2__demux__filter_samples [fa6fb7241903](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__demux__filter_samples/fa6fb7241903)
qiime2__demux__subsample_paired [d6f3e9386701](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__demux__subsample_paired/d6f3e9386701)
qiime2__demux__subsample_single [b89c3e29f757](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__demux__subsample_single/b89c3e29f757)
qiime2__demux__summarize [9d4d7f37ba01](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__demux__summarize/9d4d7f37ba01)
qiime2__diversity__adonis [edd438e4c215](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__adonis/edd438e4c215)
qiime2__diversity__alpha [81c2b920e481](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__alpha/81c2b920e481)
qiime2__diversity__alpha_correlation [534ac3cdb7ef](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__alpha_correlation/534ac3cdb7ef)
qiime2__diversity__alpha_group_significance [6698547705c9](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__alpha_group_significance/6698547705c9)
qiime2__diversity__alpha_phylogenetic [ae8ad38c91f3](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__alpha_phylogenetic/ae8ad38c91f3)
qiime2__diversity__alpha_rarefaction [3a8c645430a2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__alpha_rarefaction/3a8c645430a2)
qiime2__diversity__beta [2bba80b91449](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__beta/2bba80b91449)
qiime2__diversity__beta_correlation [2cce6fd3c5c5](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__beta_correlation/2cce6fd3c5c5)
qiime2__diversity__beta_group_significance [8f112ef712c3](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__beta_group_significance/8f112ef712c3)
qiime2__diversity__beta_phylogenetic [94580f6bb227](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__beta_phylogenetic/94580f6bb227)
qiime2__diversity__beta_rarefaction [e49e8e71778a](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__beta_rarefaction/e49e8e71778a)
qiime2__diversity__bioenv [229b1223d573](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__bioenv/229b1223d573)
qiime2__diversity__core_metrics [d491f7ce7eeb](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__core_metrics/d491f7ce7eeb)
qiime2__diversity__core_metrics_phylogenetic [4fe98252a16f](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__core_metrics_phylogenetic/4fe98252a16f)
qiime2__diversity__filter_distance_matrix [f26b195f8717](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__filter_distance_matrix/f26b195f8717)
qiime2__diversity_lib__alpha_passthrough [9cdb84be991a](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__alpha_passthrough/9cdb84be991a)
qiime2__diversity_lib__beta_passthrough [a592ae004989](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__beta_passthrough/a592ae004989)
qiime2__diversity_lib__beta_phylogenetic_meta_passthrough [c692f88fd6ea](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__beta_phylogenetic_meta_passthrough/c692f88fd6ea)
qiime2__diversity_lib__beta_phylogenetic_passthrough [954538b42388](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__beta_phylogenetic_passthrough/954538b42388)
qiime2__diversity_lib__bray_curtis [464407f09f5b](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__bray_curtis/464407f09f5b)
qiime2__diversity_lib__faith_pd [189a5010a63b](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__faith_pd/189a5010a63b)
qiime2__diversity_lib__jaccard [4cc70acceb6a](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__jaccard/4cc70acceb6a)
qiime2__diversity_lib__observed_features [b63011c31bdf](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__observed_features/b63011c31bdf)
qiime2__diversity_lib__pielou_evenness [07d9546f3c0f](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__pielou_evenness/07d9546f3c0f)
qiime2__diversity_lib__shannon_entropy [259778bc2545](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__shannon_entropy/259778bc2545)
qiime2__diversity_lib__unweighted_unifrac [2f6249bb5bb3](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__unweighted_unifrac/2f6249bb5bb3)
qiime2__diversity_lib__weighted_unifrac [f6f101a1e428](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity_lib__weighted_unifrac/f6f101a1e428)
qiime2__diversity__mantel [eb9651cfc29f](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__mantel/eb9651cfc29f)
qiime2__diversity__pcoa [105648bc06de](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__pcoa/105648bc06de)
qiime2__diversity__pcoa_biplot [606be038dfca](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__pcoa_biplot/606be038dfca)
qiime2__diversity__procrustes_analysis [be491a2fddd9](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__procrustes_analysis/be491a2fddd9)
qiime2__diversity__tsne [2d64681c0e6c](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__tsne/2d64681c0e6c)
qiime2__diversity__umap [f302618bba77](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__diversity__umap/f302618bba77)
qiime2__emperor__biplot [953ddf320293](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__emperor__biplot/953ddf320293)
qiime2__emperor__plot [5142eb50d0f1](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__emperor__plot/5142eb50d0f1)
qiime2__emperor__procrustes_plot [ccc4efc2be20](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__emperor__procrustes_plot/ccc4efc2be20)
qiime2__feature_classifier__blast [a35a5a93a0de](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__blast/a35a5a93a0de)
qiime2__feature_classifier__classify_consensus_blast [ea8cf19a6b4e](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__classify_consensus_blast/ea8cf19a6b4e)
qiime2__feature_classifier__classify_consensus_vsearch [30db102ee928](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__classify_consensus_vsearch/30db102ee928)
qiime2__feature_classifier__classify_hybrid_vsearch_sklearn [b57e9ec6c7cb](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__classify_hybrid_vsearch_sklearn/b57e9ec6c7cb)
qiime2__feature_classifier__classify_sklearn [6131ad924c9d](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__classify_sklearn/6131ad924c9d)
qiime2__feature_classifier__extract_reads [59cc917e6c43](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__extract_reads/59cc917e6c43)
qiime2__feature_classifier__find_consensus_annotation [f1ec8a01bc25](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__find_consensus_annotation/f1ec8a01bc25)
qiime2__feature_classifier__fit_classifier_naive_bayes [7f7768a05405](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__fit_classifier_naive_bayes/7f7768a05405)
qiime2__feature_classifier__fit_classifier_sklearn [8f538ba984d6](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__fit_classifier_sklearn/8f538ba984d6)
qiime2__feature_classifier__vsearch_global [22e1ea2e7868](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_classifier__vsearch_global/22e1ea2e7868)
qiime2__feature_table__core_features [99489fb3ebae](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__core_features/99489fb3ebae)
qiime2__feature_table__filter_features [80aaf563ad41](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__filter_features/80aaf563ad41)
qiime2__feature_table__filter_features_conditionally [8cb6512f92c2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__filter_features_conditionally/8cb6512f92c2)
qiime2__feature_table__filter_samples [7f1f03544164](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__filter_samples/7f1f03544164)
qiime2__feature_table__filter_seqs [fec591c0a8b2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__filter_seqs/fec591c0a8b2)
qiime2__feature_table__group [9cdbe2131ba2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__group/9cdbe2131ba2)
qiime2__feature_table__heatmap [0235f6ee6b00](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__heatmap/0235f6ee6b00)
qiime2__feature_table__merge [bf3727f84b09](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__merge/bf3727f84b09)
qiime2__feature_table__merge_seqs [e881c053d617](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__merge_seqs/e881c053d617)
qiime2__feature_table__merge_taxa [ebd22a31a6ca](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__merge_taxa/ebd22a31a6ca)
qiime2__feature_table__presence_absence [88e8fe4e5593](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__presence_absence/88e8fe4e5593)
qiime2__feature_table__rarefy [c4c298cf86ff](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__rarefy/c4c298cf86ff)
qiime2__deblur__denoise_16s [9f0d6eb2339d](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__deblur__denoise_16s/9f0d6eb2339d)
qiime2__feature_table__relative_frequency [bee177d272d6](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__relative_frequency/bee177d272d6)
qiime2__feature_table__rename_ids [4e756c17f673](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__rename_ids/4e756c17f673)
qiime2__feature_table__summarize [41e9af5ca46b](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__summarize/41e9af5ca46b)
qiime2__feature_table__tabulate_seqs [f85a59f6a6dc](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__tabulate_seqs/f85a59f6a6dc)
qiime2__feature_table__transpose [add1ecd65761](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__feature_table__transpose/add1ecd65761)
qiime2__fragment_insertion__classify_otus_experimental [df69ad7bd72e](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__fragment_insertion__classify_otus_experimental/df69ad7bd72e)
qiime2__fragment_insertion__filter_features [9f4bb27d311e](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__fragment_insertion__filter_features/9f4bb27d311e)
qiime2__fragment_insertion__sepp [b102c0399031](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__fragment_insertion__sepp/b102c0399031)
qiime2__longitudinal__anova [ff77cadbffd4](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__anova/ff77cadbffd4)
qiime2__longitudinal__feature_volatility [5a619fceee59](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__feature_volatility/5a619fceee59)
qiime2__longitudinal__first_differences [005546da41b3](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__first_differences/005546da41b3)
qiime2__longitudinal__first_distances [27d6ec9e6cf7](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__first_distances/27d6ec9e6cf7)
qiime2__longitudinal__linear_mixed_effects [dfa1b9145676](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__linear_mixed_effects/dfa1b9145676)
qiime2__longitudinal__maturity_index [de136358be79](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__maturity_index/de136358be79)
qiime2__longitudinal__nmit [7df235e8ffee](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__nmit/7df235e8ffee)
qiime2__longitudinal__pairwise_differences [2a35d9c0b3d7](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__pairwise_differences/2a35d9c0b3d7)
qiime2__longitudinal__pairwise_distances [3ea4b3a7cd98](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__pairwise_distances/3ea4b3a7cd98)
qiime2__longitudinal__plot_feature_volatility [01cff64c80d4](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__plot_feature_volatility/01cff64c80d4)
qiime2__longitudinal__volatility [9bd79ac5d5a9](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__longitudinal__volatility/9bd79ac5d5a9)
qiime2__metadata__distance_matrix [489568308331](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__metadata__distance_matrix/489568308331)
qiime2__metadata__shuffle_groups [c40e092b597b](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__metadata__shuffle_groups/c40e092b597b)
qiime2__metadata__tabulate [92bb3663bb96](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__metadata__tabulate/92bb3663bb96)
qiime2__phylogeny__align_to_tree_mafft_fasttree [1eae9d13a91e](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__align_to_tree_mafft_fasttree/1eae9d13a91e)
qiime2__phylogeny__align_to_tree_mafft_iqtree [23d03d969e3f](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__align_to_tree_mafft_iqtree/23d03d969e3f)
qiime2__phylogeny__align_to_tree_mafft_raxml [dd2f2e2a78dd](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__align_to_tree_mafft_raxml/dd2f2e2a78dd)
qiime2__phylogeny__fasttree [f55b87df371b](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__fasttree/f55b87df371b)
qiime2__phylogeny__filter_table [1483617982b9](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__filter_table/1483617982b9)
qiime2__phylogeny__filter_tree [2a19e706b950](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__filter_tree/2a19e706b950)
qiime2__phylogeny__iqtree [115edc5f53e7](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__iqtree/115edc5f53e7)
qiime2__phylogeny__iqtree_ultrafast_bootstrap [27eca41291df](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__iqtree_ultrafast_bootstrap/27eca41291df)
qiime2__phylogeny__midpoint_root [dec5adad44b4](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__midpoint_root/dec5adad44b4)
qiime2__phylogeny__raxml [f5f46f8e90f5](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__raxml/f5f46f8e90f5)
qiime2__phylogeny__raxml_rapid_bootstrap [b75fbaa44819](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__raxml_rapid_bootstrap/b75fbaa44819)
qiime2__phylogeny__robinson_foulds [b2f479ae617f](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__phylogeny__robinson_foulds/b2f479ae617f)
qiime2__quality_control__bowtie2_build [d03a538e7f15](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__quality_control__bowtie2_build/d03a538e7f15)
qiime2__quality_control__evaluate_composition [c3428af35512](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__quality_control__evaluate_composition/c3428af35512)
qiime2__quality_control__evaluate_seqs [b219a5f076a9](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__quality_control__evaluate_seqs/b219a5f076a9)
qiime2__quality_control__evaluate_taxonomy [77d8e3a550c9](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__quality_control__evaluate_taxonomy/77d8e3a550c9)
qiime2__quality_control__exclude_seqs [03c51a04d74c](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__quality_control__exclude_seqs/03c51a04d74c)
qiime2__quality_control__filter_reads [afa26637a1b8](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__quality_control__filter_reads/afa26637a1b8)
qiime2__quality_filter__q_score [c893dd688543](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__quality_filter__q_score/c893dd688543)
qiime2__sample_classifier__classify_samples [038d839c691f](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__classify_samples/038d839c691f)
qiime2__sample_classifier__classify_samples_from_dist [a4fd6a2a6e80](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__classify_samples_from_dist/a4fd6a2a6e80)
qiime2__sample_classifier__classify_samples_ncv [5d64e3c232ca](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__classify_samples_ncv/5d64e3c232ca)
qiime2__sample_classifier__confusion_matrix [350ccc095dab](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__confusion_matrix/350ccc095dab)
qiime2__sample_classifier__fit_classifier [5d635c20fa90](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__fit_classifier/5d635c20fa90)
qiime2__sample_classifier__fit_regressor [767dcee7c5c3](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__fit_regressor/767dcee7c5c3)
qiime2__sample_classifier__heatmap [9d8119a198b0](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__heatmap/9d8119a198b0)
qiime2__sample_classifier__metatable [9e75d09f0dd7](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__metatable/9e75d09f0dd7)
qiime2__sample_classifier__predict_classification [87a9833db662](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__predict_classification/87a9833db662)
qiime2__sample_classifier__predict_regression [87023c8f07e2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__predict_regression/87023c8f07e2)
qiime2__sample_classifier__regress_samples [f1c047f2736b](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__regress_samples/f1c047f2736b)
qiime2__sample_classifier__regress_samples_ncv [b6363d2b0758](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__regress_samples_ncv/b6363d2b0758)
qiime2__sample_classifier__scatterplot [65ad7be12802](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__scatterplot/65ad7be12802)
qiime2__sample_classifier__split_table [e14a0ee1d000](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__split_table/e14a0ee1d000)
qiime2__sample_classifier__summarize [b85f0fe49b56](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__sample_classifier__summarize/b85f0fe49b56)
qiime2__taxa__barplot [3fa5e4d759dc](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__taxa__barplot/3fa5e4d759dc)
qiime2__taxa__collapse [23d79b56bb5c](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__taxa__collapse/23d79b56bb5c)
qiime2__taxa__filter_seqs [5f0c935ced92](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__taxa__filter_seqs/5f0c935ced92)
qiime2__taxa__filter_table [baef54e1b523](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__taxa__filter_table/baef54e1b523)
qiime2__vsearch__cluster_features_closed_reference [dd4ab267d0b1](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vsearch__cluster_features_closed_reference/dd4ab267d0b1)
qiime2__vsearch__cluster_features_de_novo [56261d83a803](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vsearch__cluster_features_de_novo/56261d83a803)
qiime2__vsearch__cluster_features_open_reference [83c4484cf95e](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vsearch__cluster_features_open_reference/83c4484cf95e)
qiime2__vsearch__dereplicate_sequences [94ea97eb8d17](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vsearch__dereplicate_sequences/94ea97eb8d17)
qiime2__vsearch__fastq_stats [78c22686b7b7](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vsearch__fastq_stats/78c22686b7b7)
qiime2__vsearch__merge_pairs [25550e1dee74](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vsearch__merge_pairs/25550e1dee74)
qiime2__vsearch__uchime_denovo [b46134de0e4e](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vsearch__uchime_denovo/b46134de0e4e)
qiime2__vsearch__uchime_ref [1b0e65fdda63](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__vsearch__uchime_ref/1b0e65fdda63) | +| **RNA-seq** | arriba_draw_fusions [a9b4d7761b46](https://toolshed.g2.bx.psu.edu/view/iuc/arriba_draw_fusions/a9b4d7761b46)
arriba [e1ab5699a834](https://toolshed.g2.bx.psu.edu/view/iuc/arriba/e1ab5699a834)
featurecounts [37d067694d40](https://toolshed.g2.bx.psu.edu/view/iuc/featurecounts/37d067694d40) | +| **Single-cell** | hicexplorer_chicaggregatestatistic [65fc9fc648f4](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_chicaggregatestatistic/65fc9fc648f4)
hicexplorer_chicdifferentialtest [7157e98ec11a](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_chicdifferentialtest/7157e98ec11a)
hicexplorer_chicexportdata [0671a38a29d5](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_chicexportdata/0671a38a29d5)
hicexplorer_chicplotviewpoint [009ea872cdf5](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_chicplotviewpoint/009ea872cdf5)
hicexplorer_chicqualitycontrol [853c072bbb11](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_chicqualitycontrol/853c072bbb11)
hicexplorer_chicsignificantinteractions [e9cf8387e386](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_chicsignificantinteractions/e9cf8387e386)
hicexplorer_chicviewpoint [90d52ca89318](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_chicviewpoint/90d52ca89318)
hicexplorer_chicviewpointbackgroundmodel [fdb67db6d500](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_chicviewpointbackgroundmodel/fdb67db6d500)
hicexplorer_hicadjustmatrix [733162fae8b0](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicadjustmatrix/733162fae8b0)
hicexplorer_hicaggregatecontacts [9c004f11ebe4](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicaggregatecontacts/9c004f11ebe4)
hicexplorer_hicaverageregions [0ec8d77d1833](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicaverageregions/0ec8d77d1833)
hicexplorer_hiccomparematrices [6f078762ff7f](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hiccomparematrices/6f078762ff7f)
hicexplorer_hiccompartmentspolarization [4630448a0d88](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hiccompartmentspolarization/4630448a0d88)
hicexplorer_hicconvertformat [0d0c6092cc43](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicconvertformat/0d0c6092cc43)
hicexplorer_hiccorrectmatrix [c5ce0cbf73dc](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hiccorrectmatrix/c5ce0cbf73dc)
hicexplorer_hiccorrelate [5faa9d3839d0](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hiccorrelate/5faa9d3839d0)
hicexplorer_hicdetectloops [18bf75bf5d67](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicdetectloops/18bf75bf5d67)
hicexplorer_hicdifferentialtad [5b245b3ded3f](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicdifferentialtad/5b245b3ded3f)
hicexplorer_hicfindrestrictionsites [430acc59e883](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicfindrestrictionsites/430acc59e883)
hicexplorer_hichyperoptdetectloops [1fa29fabe773](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hichyperoptdetectloops/1fa29fabe773)
hicexplorer_hicinfo [58293f858e2d](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicinfo/58293f858e2d)
hicexplorer_hicinterintratad [eddb1f249f6c](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicinterintratad/eddb1f249f6c)
hicexplorer_hicmergedomains [ee33791e32dc](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicmergedomains/ee33791e32dc)
hicexplorer_hicmergeloops [7f88b2b4662d](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicmergeloops/7f88b2b4662d)
hicexplorer_hicnormalize [b1815cb2b298](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicnormalize/b1815cb2b298)
hicexplorer_hicplotaverageregions [16a8d1688c65](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicplotaverageregions/16a8d1688c65)
hicexplorer_hicplotdistvscounts [9f0578013f9b](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicplotdistvscounts/9f0578013f9b)
hicexplorer_hicplotsvl [ff9f5d335041](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicplotsvl/ff9f5d335041)
hicexplorer_hicplotviewpoint [bb9e080ae77b](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicplotviewpoint/bb9e080ae77b)
hicexplorer_hicquickqc [0a134c0bdb39](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicquickqc/0a134c0bdb39)
hicexplorer_hicsummatrices [86958f9bec1b](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicsummatrices/86958f9bec1b)
hicexplorer_hictransform [a4b4bb07ed14](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hictransform/a4b4bb07ed14)
hicexplorer_hicvalidatelocations [4060d361cf3c](https://toolshed.g2.bx.psu.edu/view/bgruening/hicexplorer_hicvalidatelocations/4060d361cf3c)
raceid_clustering [14ac9a11465e](https://toolshed.g2.bx.psu.edu/view/iuc/raceid_clustering/14ac9a11465e)
raceid_filtnormconf [4d69676e6af2](https://toolshed.g2.bx.psu.edu/view/iuc/raceid_filtnormconf/4d69676e6af2)
raceid_inspectclusters [53d889b0a2c9](https://toolshed.g2.bx.psu.edu/view/iuc/raceid_inspectclusters/53d889b0a2c9)
raceid_inspecttrajectory [9606d2385547](https://toolshed.g2.bx.psu.edu/view/iuc/raceid_inspecttrajectory/9606d2385547)
raceid_trajectory [fe9bf1aa669e](https://toolshed.g2.bx.psu.edu/view/iuc/raceid_trajectory/fe9bf1aa669e) | +| **Variant Calling** | artic_guppyplex [e92767bd4412](https://toolshed.g2.bx.psu.edu/view/iuc/artic_guppyplex/e92767bd4412)
artic_minion [c218cc6bf765](https://toolshed.g2.bx.psu.edu/view/iuc/artic_minion/c218cc6bf765)
plink [9c48485bf664](https://toolshed.g2.bx.psu.edu/view/iuc/plink/9c48485bf664) |