v1.1.0

What's Changed

• BUSCO 6.0.0; refactor all rules. remote blast; better reports by @cokelaer in #80
• Added longReadSum to for extra QC
• Added M&M section to longread summary by @cokelaer in #81
• Added codacy yaml and fix some formatting by @cokelaer in #82

Full Changelog: v1.0.2...v1.1.0

v1.0.2

dummy release for zenodo

v1.0.1

What's Changed

• add ragtag for scaffold by @cokelaer in #70
• add missing dependency on bs4 by @cokelaer in #71
• some fixes related to scaffold and ccs by @cokelaer in #72
• Fix #69 (bs4 dependency) by @cokelaer in #73

Full Changelog: v1.0.0...v1.0.1

v1.0.0

What's Changed

• First version of lora pipeline by @ddesvillechabrol in #3
• Add hifiasm & Split snakefile & Use sequana-wrappers by @ddesvillechabrol in #4
• refacto lora like other pipelines & remove sequana dep by @ddesvillechabrol in #10
• add merge data after ccs generation by @ddesvillechabrol in #16
• Add flye assembler by @ddesvillechabrol in #18
• fix pipeline using input_directory by @ddesvillechabrol in #19
• Fixing #22, #21 and #20 by @cokelaer in #23
• update canu options & add circlator force option by @ddesvillechabrol in #27
• Improvement to the UI , small HTML change, multiqc modules added by @cokelaer in #31
• Blast only contig subset by @ddesvillechabrol in #33
• Create summary page by @ddesvillechabrol in #34
• Use tailwind instead of bulma by @ddesvillechabrol in #35
• scheme for integration of polishing step by @ddesvillechabrol in #41
• Add polypolish by @cokelaer in #42
• add medaka_consensus & use profile by @ddesvillechabrol in #43
• Add polishing nanopore by @ddesvillechabrol in #44
• add apptainers by @cokelaer in #45
• add more containers and small refactoring by @cokelaer in #46
• Use poetry by @ddesvillechabrol in #50
• set input for nanopore to fastq, fix min-rq type by @cokelaer in #52
• get version from apptainer & update rulegraph by @ddesvillechabrol in #54
• add checkm software by @cokelaer in #58
• Fixing CI workflow by @cokelaer in #59
• Add multiqc,unicycler, update to use click by @cokelaer in #60
• add precommit, update flye container, small fixes by @cokelaer in #65
• Major update by @cokelaer in #67

New Contributors

• @ddesvillechabrol made their first contribution in #3
• @cokelaer made their first contribution in #23

Full Changelog: https://github.com/sequana/lora/commits/v1.0.0