polkapox - v2.2.0

What's Changed

• Unicyler refactoring kao Clade I Rewrite by @kyleoconnell in https://github.com/CDCgov/polkapox/pull/27
• Update conda envs by @kyleoconnell in https://github.com/CDCgov/polkapox/pull/42

Full Changelog: https://github.com/CDCgov/polkapox/compare/v2.1.0...v2.2.0

- Python
Published by jessicarowell over 1 year ago

polkapox - v2.1.0

What's Changed

• Updates to support clade I assemblies
• Updates to README.md and usage.md
• Reorganize the modules/nf-core directory to remove the extra modules subdirectory
• Update documentation ufp0 by @kyleoconnell in https://github.com/CDCgov/polkapox/pull/38

Full Changelog: https://github.com/CDCgov/polkapox/compare/v2.0.0...v2.1.0

- Python
Published by jessicarowell over 1 year ago

polkapox -

What's Changed

• Major update: mpxv-AssemblyGraph_gfaPy.py refactored to support Monkeypoxvirus clade I assemblies
• Minor updates to containers:
• modules/local/summarizetsv.nf: bionumpy:0.2.17--pyha8f36910
• modules/local/variantconvert.nf: bionumpy:0.2.17--pyha8f36910
• modules/local/summarize_qc.nf: pandas:1.1.5
• modules/local/publishcontigs.nf: bionumpy:0.2.17--pyha8f36910
• modules/local/aggregatetsvs.nf: bionumpy:0.2.17--pyha8f36910
• modules/nf-core/modules/sratools/prefetch/main.nf: sra-tools:3.1.0--h9f5acd7_0
• modules/nf-core/modules/sratools/fasterqdump/main.nf: 2f4a4c900edd6801ff0068c2b3048b4459d119eb-0
• modules/nf-core/modules/unicycler/main.nf: unicycler:0.5.0--py312hc60241a_5
• Minor updates to graphreconstruct.nf to support mpxv-AssemblyGraphgfaPy.py refactor
• Commented out docker.userEmulation in nextflow.config

Full Changelog: https://github.com/CDCgov/polkapox/compare/v1.0.0...v1.1.0

- Python
Published by jessicarowell over 1 year ago

polkapox - v1.0.0

Baseline version of pipeline to support mpxv from clade II. Not compatible with mpxv clade I or other pox virus species.

- Python
Published by kyleoconnell over 1 year ago