Version v3.0.0

• Update codebase to support PE + SE as input, which lead to incompatible input format headers with previous release
• Update taxonomic assignment step, now gtdbtk will be performed for all high and medium quality MAGs

Version v2.5.0

• Support KMCP/Kraken2 database construction automaticlly from the representative MAGs
• Support CheckV
• Support DBSCAN-SWA for prophage detection and annotation
• Fix SE reads preprocessing
• Fix version and missing software issue of conda environments

Version v2.4.0

• Check paired-end reads at prepare reads step
• Support --dedup when using fastp at trimming step

Version v2.3.0

• Remove OAs1 at trimming step
• Remove soap at rmhost step
• Use conda for all import rule, such as trimming, rmhost, assembly, alignment, binning
• Fix bugs

Version v2.2.0

• Support running virsorter2 using split contigs
• Fix typo

Version v2.1.4

• fix parsing bin bugs

Version v2.1.3

• Fix minimal snakemake version

Version v2.1.2

• Update dependencies #39
• Fix bug when scan dastools bins to do gene predict (only predict maxbin2, now fixed)

Version v2.1.1

• Add natsort as dependence

Version v2.1.0

• Support VirSorter2 for single viral bin
• Support DeepVirFinder for single viral bin
• Support phamb for multi-contigs viral bin
• Update software version of conda envs
• Fix bugs and typo