I am using conda installed Quast v5.0.2 to generate stats for genome assemblies. The report indicates "All statistics are based on contigs of size >= 100000 bp . . ." How can I change this so that the stats are based on contigs >= 1000 bp?
potentially not the answer you're expecting but did you check the manual (or help) of Quast?
100Kb sounds rather large as default btw.
yes definitely. It says you can specify contig length but default is 500. I am not specifying contig length and the report says that the stats are based on contigs >= 100,000. So I am not sure what is happening.
ok, that's something already.
can you post the exact command line you are executing?
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