├── README.md ├── complexmock.txt ├── config ├── Select_config.json └── cogs.txt └── scripts ├── AddLengths.pl ├── CombineTau.pl ├── CompareTau.sh ├── CopyCogs.sh ├── CoverageGenerate.py ├── Degenerate.sh ├── Filter.pl ├── FilterTau.sh ├── MapCogBack.pl ├── MapCounts.py ├── MoveStrains.pl ├── ReverseStrand.pl ├── ReverseStrand.sh ├── SampleGenerate.py ├── SampleGenerate.sh ├── SplitCOGs.pl ├── SplitGenes.pl ├── StrainAnalysis.sh ├── ValidateStrains.sh ├── VarResults.sh ├── contig_read_count_per_genome.py ├── contig_read_count_per_genomeM.py └── var_validate.py /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chrisquince/StrainMetaSim/HEAD/README.md -------------------------------------------------------------------------------- /complexmock.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/chrisquince/StrainMetaSim/HEAD/complexmock.txt 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