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Recent Releases of aladdin-shotgun

aladdin-shotgun - 0.1.0

What's Changed

  • Ampliseq sync by @nsharp2 in https://github.com/Zymo-Research/aladdin-shotgun/pull/123
  • ANCOM-BC + ampliseq synchronization by @nsharp2 in https://github.com/Zymo-Research/aladdin-shotgun/pull/124
  • changes to allow pipeline to work on HPC by @nsharp2 in https://github.com/Zymo-Research/aladdin-shotgun/pull/125
  • New Krona Subworkflow by @nsharp2 in https://github.com/Zymo-Research/aladdin-shotgun/pull/126
  • Rebranding changes, mostly cosmetic by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/127
  • description of standard error bar added to ancombc by @nsharp2 in https://github.com/Zymo-Research/aladdin-shotgun/pull/128
  • Update README.md by @nsharp2 in https://github.com/Zymo-Research/aladdin-shotgun/pull/130
  • MultiQC Cosmetic Changes by @nsharp2 in https://github.com/Zymo-Research/aladdin-shotgun/pull/132
  • 0.1.0 changes by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/133

Full Changelog: https://github.com/Zymo-Research/aladdin-shotgun/compare/0.0.14...0.1.0

- Python
Published by zxl124 9 months ago

aladdin-shotgun - 0.0.14

What's Changed

  • 0.0.14 by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/121

Full Changelog: https://github.com/Zymo-Research/aladdin-shotgun/compare/0.0.13...0.0.14

- Python
Published by zxl124 about 1 year ago

aladdin-shotgun - 0.0.13

What's Changed

  • edit amrindexfiles location for dev by @annabelledamerum in https://github.com/Zymo-Research/aladdin-shotgun/pull/118
  • Revert "edit amrindexfiles location for dev" by @annabelledamerum in https://github.com/Zymo-Research/aladdin-shotgun/pull/119
  • changes related to running on ZymoCloud by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/120

New Contributors

  • @annabelledamerum made their first contribution in https://github.com/Zymo-Research/aladdin-shotgun/pull/118

Full Changelog: https://github.com/Zymo-Research/aladdin-shotgun/compare/0.0.12...0.0.13

- Python
Published by zxl124 about 1 year ago

aladdin-shotgun - 0.0.12

What's Changed

  • Out of Memory Error in resistome_snpverify fixed by @nsharp2 in https://github.com/Zymo-Research/aladdin-shotgun/pull/112
  • add check for empty samples or no samples after filtering by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/113
  • CITATIONS.md update by @nsharp2 in https://github.com/Zymo-Research/aladdin-shotgun/pull/114
  • Sourmash database and default kmer update by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/116
  • 0.0.12 by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/117

Full Changelog: https://github.com/Zymo-Research/aladdin-shotgun/compare/0.0.11...0.0.12

- Python
Published by zxl124 over 1 year ago

aladdin-shotgun - 0.0.11

See #108 for details.

- Python
Published by zxl124 almost 2 years ago

aladdin-shotgun - 0.0.10

What's Changed

  • remove --stdout from fastp commands by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/104
  • 0.0.10 by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/105

Full Changelog: https://github.com/Zymo-Research/aladdin-shotgun/compare/0.0.9...0.0.10

- Python
Published by zxl124 almost 2 years ago

aladdin-shotgun - 0.0.9

What's Changed

  • change s3 address for beta diversity files by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/99
  • update sourmash threshold_bp to 5000 by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/101
  • Updates for 0.0.9 by @zxl124 in https://github.com/Zymo-Research/aladdin-shotgun/pull/102

Full Changelog: https://github.com/Zymo-Research/aladdin-shotgun/compare/0.0.8...0.0.9

- Python
Published by zxl124 almost 2 years ago

aladdin-shotgun - fix for ARM++ error

See #97

- Python
Published by zxl124 about 2 years ago

aladdin-shotgun - AMR corrections and more relaxed filtering

Correct a few things with AMR++ Relaxed the strict filtering so that pipeline is more tolerant with poorly-defined samples or samples with low no. reads. See #94 for details.

- Python
Published by zxl124 about 2 years ago

aladdin-shotgun - AMR and wastewater

Added a major analysis component (AMR) and an experimental report section. See #85 for details.

- Python
Published by zxl124 about 2 years ago

aladdin-shotgun - sourmash feature ID; report title

  • #70 sourmash now uses genome IDs as feature IDs; outputs a feature table that are not collapsed to taxonomy levels.
  • #71 MultiQC report title now tracks value of -name.

- Python
Published by zxl124 over 2 years ago

aladdin-shotgun - test release for public use

See details in #69

- Python
Published by zxl124 over 2 years ago