Comparative assemblies
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AMOScmp pipeline
Modified parameters
* Smaller alignement/cluster sizes : default are 20/65 ; drop to 16/16 ; as low as 14/14; 12/12 gives too many spurious alignments: -D MINCLUSTER=20 * Drop min ovl from 10 to 5: -D MINOVL=5 * Drop majority from 70 to 50: -D MAJORITY=50 * Drop wiggle from 15 to 2 -D ALIGNWIGGLE=2 * Use promer instead of nucmer: alignement/cluster sizes of 6/11 (in AA)