Open levinas opened 9 years ago
to consider predicted genes and include penalty on N's.
Here's an example of megahit output compared to velvet k sweep 29-37:4.
Assembly velvet_contigs velvet_contigs 1 velvet_contigs 2 velvet_contigs 3 megahit_contigs velvet_contigs 4 velvet_contigs 5 # contigs (>= 0 bp) 4728 6975 6918 7707 5599 6182 5363 # contigs (>= 1000 bp) 595 719 700 516 368 229 111 Total length (>= 0 bp) 3088612 2824652 2614542 2201267 2659076 1505354 1145321 Total length (>= 1000 bp) 2465567 1797151 1505078 869480 521505 336212 148188 # contigs 747 1032 1060 1012 1745 657 427 Largest contig 27010 20206 10620 7043 7608 4999 2714 Total length 2576302 2030247 1774823 1235908 1449883 643186 375876 GC (%) 56.02 55.53 55.01 54.39 55.62 52.99 52.18 N50 5241 2570 2048 1354 832 1041 894 N75 2999 1558 1257 926 635 744 707 L50 148 248 272 302 594 215 154 L75 306 503 546 576 1097 400 273 # N's per 100 kbp 14446.21 18417.56 22478.35 24798.12 0.00 29970.96 31361.14 # predicted genes (unique) 5510 4818 4342 3188 2859 1655 955 # predicted genes (>= 0 bp) 5510 4818 4342 3188 2859 1655 955 # predicted genes (>= 300 bp) 2109 1346 903 470 1758 144 74 # predicted genes (>= 1500 bp) 2 0 0 0 11 0 0 # predicted genes (>= 3000 bp) 0 0 0 0 0 0 0
to consider predicted genes and include penalty on N's.
Here's an example of megahit output compared to velvet k sweep 29-37:4.