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mikolmogorov / maf2synteny

A tool for recovering synteny blocks from multiple alignment
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How to improve genome coverage? #10

Open kiwijiji opened 1 year ago

kiwijiji commented 1 year ago

is genome coverage related to both -b and -s ? I got 95% coverage with -b 1000 and -s {30,10},{100,100},{500,1000}.And l also tried {30,10},{100,100},{500,1000},{1000,5000} and {30,10},{100,100} . The coverage is still 95%. I have ten genomes ,how can l improve coverage to 98%-99%?

mikolmogorov commented 1 year ago

95% is a very decent coverage for ten genomes. Naturally each genome may contain sequences that are unique to them, and that's why you may not get 100%.