ComparativeGenomicsToolkit / cactus

Official home of genome aligner based upon notion of Cactus graphs
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Can this graph coverage be considered normal or good? #1430

Open peanut-nu opened 1 month ago

peanut-nu commented 1 month ago

hi,Can you take a look at this graph coverage for me, please? 微信截图_20240704161656

And my count-vg-hap-cov result like this , `<html xmlns:v="urn:schemas-microsoft-com:vml" xmlns:o="urn:schemas-microsoft-com:office:office" xmlns:x="urn:schemas-microsoft-com:office:excel" xmlns="http://www.w3.org/TR/REC-html40">

hap-depth | nodes | bases | non-n-bases | nodes-cumul | bases-cumul | non-n-bases-cumul | nodes-cumul-rev | bases-cumul-rev | non-n-bases-cumul-rev | nodes-nonref | bases-nonref | non-n-bases-nonref | nodes-cumul-nonref | bases-cumul-nonref | non-n-bases-cumul-nonref | nodes-cumul-rev-nonref | bases-cumul-rev-nonref | non-n-bases-cumul-rev-nonref -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- | -- 0 | 0 | 0 | 0 | 0 | 0 | 0 | 270429547 | 3120391423 | 3119088222 | 0 | 0 | 0 | 0 | 0 | 0 | 157180779 | 2331951016 | 2330648815 1 | 85589339 | 2093593684 | 2092290583 | 85589339 | 2093593684 | 2092290583 | 270429547 | 3120391423 | 3119088222 | 76515445 | 1856592446 | 1855290345 | 76515445 | 1856592446 | 1855290345 | 157180779 | 2331951016 | 2330648815 2 | 41386709 | 331619773 | 331619673 | 126976048 | 2425213457 | 2423910256 | 184840208 | 1026797739 | 1026797639 | 31605407 | 240792145 | 240792045 | 108120852 | 2097384591 | 2096082390 | 80665334 | 475358570 | 475358470 3 | 31009641 | 234831449 | 234831449 | 157985689 | 2660044906 | 2658741705 | 143453499 | 695177966 | 695177966 | 16609744 | 95618418 | 95618418 | 124730596 | 2193003009 | 2191700808 | 49059927 | 234566425 | 234566425 4 | 20470898 | 119834679 | 119834679 | 178456587 | 2779879585 | 2778576384 | 112443858 | 460346517 | 460346517 | 12480633 | 78445227 | 78445227 | 137211229 | 2271448236 | 2270146035 | 32450183 | 138948007 | 138948007 5 | 13240326 | 56667524 | 56667524 | 191696913 | 2836547109 | 2835243908 | 91972960 | 340511838 | 340511838 | 6253921 | 25680521 | 25680521 | 143465150 | 2297128757 | 2295826556 | 19969550 | 60502780 | 60502780 6 | 9792418 | 32948971 | 32948971 | 201489331 | 2869496080 | 2868192879 | 78732634 | 283844314 | 283844314 | 4027617 | 12660952 | 12660952 | 147492767 | 2309789709 | 2308487508 | 13715629 | 34822259 | 34822259 7 | 9028712 | 27664839 | 27664839 | 210518043 | 2897160919 | 2895857718 | 68940216 | 250895343 | 250895343 | 3107414 | 8405878 | 8405878 | 150600181 | 2318195587 | 2316893386 | 9688012 | 22161307 | 22161307 8 | 8750491 | 24045155 | 24045155 | 219268534 | 2921206074 | 2919902873 | 59911504 | 223230504 | 223230504 | 2472303 | 5770314 | 5770314 | 153072484 | 2323965901 | 2322663700 | 6580598 | 13755429 | 13755429 9 | 8773784 | 22945929 | 22945929 | 228042318 | 2944152003 | 2942848802 | 51161013 | 199185349 | 199185349 | 2210522 | 4616725 | 4616725 | 155283006 | 2328582626 | 2327280425 | 4108295 | 7985115 | 7985115 10 | 10381362 | 26863320 | 26863320 | 238423680 | 2971015323 | 2969712122 | 42387229 | 176239420 | 176239420 | 1048265 | 1928015 | 1928015 | 156331271 | 2330510641 | 2329208440 | 1897773 | 3368390 | 3368390 11 | 15230174 | 45737192 | 45737192 | 253653854 | 3016752515 | 3015449314 | 32005867 | 149376100 | 149376100 | 726055 | 1221112 | 1221112 | 157057326 | 2331731753 | 2330429552 | 849508 | 1440375 | 1440375 12 | 14247009 | 87117333 | 87117333 | 267900863 | 3103869848 | 3102566647 | 16775693 | 103638908 | 103638908 | 115039 | 201489 | 201489 | 157172365 | 2331933242 | 2330631041 | 123453 | 219263 | 219263 13 | 2386554 | 15621362 | 15621362 | 270287417 | 3119491210 | 3118188009 | 2528684 | 16521575 | 16521575 | 6887 | 10955 | 10955 | 157179252 | 2331944197 | 2330641996 | 8414 | 17774 | 17774 14 | 135558 | 871719 | 871719 | 270422975 | 3120362929 | 3119059728 | 142130 | 900213 | 900213 | 1487 | 6769 | 6769 | 157180739 | 2331950966 | 2330648765 | 1527 | 6819 | 6819 15 | 4594 | 17907 | 17907 | 270427569 | 3120380836 | 3119077635 | 6572 | 28494 | 28494 | 40 | 50 | 50 | 157180779 | 2331951016 | 2330648815 | 40 | 50 | 50 16 | 1978 | 10587 | 10587 | 270429547 | 3120391423 | 3119088222 | 1978 | 10587 | 10587 | 0 | 0 | 0 | 157180779 | 2331951016 | 2330648815 | 0 | 0 | 0

` Thank you so much !

glennhickey commented 1 month ago

I think this seems reasonable.

peanut-nu commented 1 month ago

I think this seems reasonable.

ok,so i can do something next ?? Thank you too much.Have a nice dream!