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Commits on Aug 27, 2024

• Merge pull request nf-core#284 from nf-core/dev

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Commits on Jul 26, 2024

• small fixes to allow main_coda.nf to run

  

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Commits on Jun 25, 2024

• Wire in new shinyngs log options, remove deprecated guessing option

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Commits on May 22, 2024

• Merge branch 'TEMPLATE' of https://github.com/nf-core/differentialabundance into template_up2_14_1

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Commits on May 8, 2024

• Template update for nf-core/tools version 2.14.0

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Commits on Apr 30, 2024

• log2 assays are not a features thing

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Commits on Apr 19, 2024

• Fixed filter_difftable module not properly filtering (had to switch to python); undid the changes to the docs/defaults for --proteus_measurecol_prefix regarding the final space

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Commits on Mar 27, 2024

• more linting; fails locally despite same paths as in airrflow, but maybe it works online?

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• Bugfix in proteus_measurecol_prefix parameter with final whitespace

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Commits on Mar 22, 2024

• added description of observations_name_col default

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Commits on Mar 21, 2024

• removed advanced options key from schema, re-added example of observations_name_col

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• Returned advanced options to their sections, removed default for observations_name_col

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Commits on Mar 20, 2024

• linting

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• Moved differential_file_suffix and exploratory_assay_names to advanced options, made suffix an optional param2

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Commits on Mar 19, 2024

• Added QBiC credits, made observations_name_col optional on modules.config, changed features_id/name_col helptext

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Commits on Feb 27, 2024

• Belatedly added NA options for matrixfilter to the pipeline

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Commits on Feb 20, 2024

• Template update for nf-core/tools version 2.13

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Commits on Jan 31, 2024

• Fix linting

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Commits on Jan 23, 2024

• Changed contributor info from file to string param, simplified CSS and RMD code

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Commits on Jan 16, 2024

• Linting, bugfixes

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• Merge branch 'dev' of https://github.com/nf-core/differentialabundance into project_info

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• Changed report contact info to a single param and added CSS for styling; updated docs

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Commits on Dec 19, 2023

• removed gprofiler mode

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Commits on Dec 18, 2023

• Added param for selectively running gprofiler2 without GMT

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Commits on Dec 13, 2023

• adapted gprofiler2 report section to gsea, changed order of docu, added gprofiler and gsea in parallel to test_full, removed gprofiler from test, made gprofiler use a background by default

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Commits on Dec 8, 2023

• Param renames, adapted workflow to do the correct checks; fixed a bug in the gprofiler2 module. It is now the same as that in my nf-core/modules PR but I still need to 'officially' install the upda…

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• added difftable filtering module, added short docu section for gsea, renamed params

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Commits on Dec 5, 2023

• Fixed some old params

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• Combined gprofiler with gsea section in report results; added short gsea docu; replaced gsea with gprofiler in test config (gsea is still tested in test_affy); moved round_digits and gene_sets to n…

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Commits on Nov 30, 2023

• fixed schema, added icons to proteus and gprofiler2

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• Merge branch 'dev' of https://github.com/nf-core/differentialabundance into add_gpro

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Commits on Nov 27, 2023

• Address @mashehu feedback for release

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• Corrected metro maps, uncommented error case in workflow, fixed spelling error in schema, added rds to GOST output

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• Merge branch 'dev' of https://github.com/nf-core/differentialabundance into add_gpro

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Commits on Nov 22, 2023

• Schema fix

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