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| --- | ||
| site: freiburg | ||
| tags: [tools] | ||
| title: UseGalaxy.eu Tool Updates for 2023-10-01 | ||
| supporters: | ||
| - denbi | ||
| - elixir | ||
| --- | ||
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| On 2023-10-01, the tools on UseGalaxy.eu were updated by our automated tool update and installation process in [Jenkins Build #407](https://build.galaxyproject.eu/job/usegalaxy-eu/job/install-tools/#407/) | ||
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| ## Text Manipulation | ||
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| - add_value was updated to [023f0a3760b3](https://toolshed.g2.bx.psu.edu/view/devteam/add_value/023f0a3760b3) | ||
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| ## QIIME 2 | ||
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| - qiime2__deblur__denoise_16S was updated to [2572fc0f88f2](https://toolshed.g2.bx.psu.edu/view/q2d2/qiime2__deblur__denoise_16S/2572fc0f88f2) | ||
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| ## Proteomics | ||
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| - openms_openpepxl was updated to [40cc19c0dbd6](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_openpepxl/40cc19c0dbd6) | ||
| - openms_openpepxl was updated to [a2a842b00f9c](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_openpepxl/a2a842b00f9c) | ||
| - openms_openpepxl was updated to [fc36cfd19834](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_openpepxl/fc36cfd19834) | ||
| - openms_percolatoradapter was updated to [0fc9ae55bcfc](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_percolatoradapter/0fc9ae55bcfc) | ||
| - openms_percolatoradapter was updated to [e7881a82b56d](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_percolatoradapter/e7881a82b56d) | ||
| - openms_xfdr was updated to [81402a5e4173](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_xfdr/81402a5e4173) | ||
| - openms_xfdr was updated to [9a6e3bb0f358](https://toolshed.g2.bx.psu.edu/view/galaxyp/openms_xfdr/9a6e3bb0f358) | ||
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| ## Get Data | ||
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| - ega_download_client was updated to [6cb20e130473](https://toolshed.g2.bx.psu.edu/view/iuc/ega_download_client/6cb20e130473) | ||
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| ## Metagenomic Analysis | ||
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| - kraken2tax was updated to [50bd98b3ae5a](https://toolshed.g2.bx.psu.edu/view/devteam/kraken2tax/50bd98b3ae5a) | ||
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| ## Nanopore | ||
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| - medaka_consensus was updated to [18505fe2bdb1](https://toolshed.g2.bx.psu.edu/view/iuc/medaka_consensus/18505fe2bdb1) | ||
| - medaka_consensus_pipeline was updated to [fc8804320156](https://toolshed.g2.bx.psu.edu/view/iuc/medaka_consensus_pipeline/fc8804320156) | ||
| - medaka_variant was updated to [eb746fa6f514](https://toolshed.g2.bx.psu.edu/view/iuc/medaka_variant/eb746fa6f514) | ||
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| ## RNA Analysis | ||
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| - edger was updated to [0cb907a2a810](https://toolshed.g2.bx.psu.edu/view/iuc/edger/0cb907a2a810) | ||
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| ## Variant Calling | ||
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| - cnvkit_access was updated to [9f18bcf53f92](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_access/9f18bcf53f92) | ||
| - cnvkit_antitarget was updated to [b52fa1df3bc4](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_antitarget/b52fa1df3bc4) | ||
| - cnvkit_autobin was updated to [94e1d19c8190](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_autobin/94e1d19c8190) | ||
| - cnvkit_batch was updated to [4653aeb60243](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_batch/4653aeb60243) | ||
| - cnvkit_call was updated to [0a5e2fc51dfb](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_call/0a5e2fc51dfb) | ||
| - cnvkit_coverage was updated to [5602cbf1153b](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_coverage/5602cbf1153b) | ||
| - cnvkit_diagram was updated to [697c61206f5f](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_diagram/697c61206f5f) | ||
| - cnvkit_fix was updated to [dc0fb5f07231](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_fix/dc0fb5f07231) | ||
| - cnvkit_heatmap was updated to [d8c45afa221c](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_heatmap/d8c45afa221c) | ||
| - cnvkit_reference was updated to [0c3db8ec44b0](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_reference/0c3db8ec44b0) | ||
| - cnvkit_scatter was updated to [3323a7867128](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_scatter/3323a7867128) | ||
| - cnvkit_segment was updated to [c4a22d0fdba5](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_segment/c4a22d0fdba5) | ||
| - cnvkit_target was updated to [876630eb0680](https://toolshed.g2.bx.psu.edu/view/iuc/cnvkit_target/876630eb0680) | ||
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| ## None | ||
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| - data_manager_diamond_database_builder was updated to [4a08b7b76b78](https://toolshed.g2.bx.psu.edu/view/iuc/data_manager_diamond_database_builder/4a08b7b76b78) | ||
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| ## deepTools | ||
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| - deeptools_alignmentsieve was updated to [97b384b7bfb0](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_alignmentsieve/97b384b7bfb0) | ||
| - deeptools_bam_compare was updated to [c929a006727f](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_bam_compare/c929a006727f) | ||
| - deeptools_bam_coverage was updated to [0e49b109abc2](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_bam_coverage/0e49b109abc2) | ||
| - deeptools_bam_pe_fragmentsize was updated to [c06951d10364](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_bam_pe_fragmentsize/c06951d10364) | ||
| - deeptools_bigwig_average was updated to [4a53856a5b85](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_bigwig_average/4a53856a5b85) | ||
| - deeptools_bigwig_compare was updated to [07418a30ed01](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_bigwig_compare/07418a30ed01) | ||
| - deeptools_compute_gc_bias was updated to [26983857c91a](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_compute_gc_bias/26983857c91a) | ||
| - deeptools_compute_matrix was updated to [a60c359ec43c](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_compute_matrix/a60c359ec43c) | ||
| - deeptools_compute_matrix_operations was updated to [e6d0bff01239](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_compute_matrix_operations/e6d0bff01239) | ||
| - deeptools_correct_gc_bias was updated to [e479c7ca5570](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_correct_gc_bias/e479c7ca5570) | ||
| - deeptools_estimatereadfiltering was updated to [c72a755904a9](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_estimatereadfiltering/c72a755904a9) | ||
| - deeptools_multi_bam_summary was updated to [01fb6a7654e6](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_multi_bam_summary/01fb6a7654e6) | ||
| - deeptools_multi_bigwig_summary was updated to [137c4beed34b](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_multi_bigwig_summary/137c4beed34b) | ||
| - deeptools_plot_correlation was updated to [bad3ca889618](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_plot_correlation/bad3ca889618) | ||
| - deeptools_plot_coverage was updated to [231994413f89](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_plot_coverage/231994413f89) | ||
| - deeptools_plot_enrichment was updated to [4431f39ede55](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_plot_enrichment/4431f39ede55) | ||
| - deeptools_plot_fingerprint was updated to [4ed32329e0ed](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_plot_fingerprint/4ed32329e0ed) | ||
| - deeptools_plot_heatmap was updated to [e4c7985d4585](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_plot_heatmap/e4c7985d4585) | ||
| - deeptools_plot_pca was updated to [443d9a9d6d11](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_plot_pca/443d9a9d6d11) | ||
| - deeptools_plot_profile was updated to [6662b1a8d326](https://toolshed.g2.bx.psu.edu/view/bgruening/deeptools_plot_profile/6662b1a8d326) | ||
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