Visualizing regions in chr 20 pangenomes

vg view

Images made using vg view | dot.

Only the reference path is shown for now.

chr20-420496-420995

chr20-420496-420995 SVs in cactus/seqwish/minigraph + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-1225490-1225989

chr20-1225490-1225989 SVs in cactus/seqwish/minigraph + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-1797986-1798485

chr20-1797986-1798485 SVs in cactus/seqwish/minigraph + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-16394873-16395372

chr20-16394873-16395372 SVs in cactus/seqwish + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-16395373-16395872

chr20-16395373-16395872 SVs in cactus/seqwish + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-38627201-38627700

chr20-38627201-38627700 SVs in cactus/seqwish + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-641366-642366

chr20-641366-642366 GIAB >200bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-818780-819780

chr20-818780-819780 GIAB >200bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.rcit-50.hg38_chr20-818780-819780_c50.dot.svg (1.95 Mbytes)

cactus.minigraph.mask.rc1.20.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.rc1.20.hg38_chr20-818780-819780_c50.dot.svg (2.03 Mbytes)

cactus.minigraph.mask.dec8.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.dec8.hg38_chr20-818780-819780_c50.dot.svg (2.15 Mbytes)

cactus.minigraph.mask.s10000.dec8.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.s10000.dec8.hg38_chr20-818780-819780_c50.dot.svg (1.92 Mbytes)

cactus.minigraph.mask.chain256.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.chain256.hg38_chr20-818780-819780_c50.dot.svg (1.79 Mbytes)

cactus.minigraph.mask.chain512.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.chain512.hg38_chr20-818780-819780_c50.dot.svg (1.87 Mbytes)

chr20-2842273-2843273

chr20-2842273-2843273 GIAB >200bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2822301-2825963

chr20-2822301-2825963 GIAB >200bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-3057020-3057736

chr20-3057020-3057736 GIAB >200bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-16259367-16260184

chr20-16259367-16260184 GIAB >200bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-1225397-1226397

chr20-1225397-1226397 GIAB <100bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4224204-4225204

chr20-4224204-4225204 GIAB <100bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-13848038-13849038

chr20-13848038-13849038 GIAB <100bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2240863-2241346

chr20-2240863-2241346 GIAB <100bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-3441053-3441503

chr20-3441053-3441503 GIAB <100bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4227452-4227904

chr20-4227452-4227904 GIAB <100bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-3516738-3518277

chr20-3516738-3518277 small SD (0.996 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-64288745-64290884

chr20-64288745-64290884 small SD (0.991 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.rcit-50.hg38_chr20-64288745-64290884_c50.dot.svg (1.45 Mbytes)

cactus.minigraph.mask.rc1.20.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.rc1.20.hg38_chr20-64288745-64290884_c50.dot.svg (1.44 Mbytes)

cactus.minigraph.mask.dec8.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.dec8.hg38_chr20-64288745-64290884_c50.dot.svg (1.45 Mbytes)

cactus.minigraph.mask.s10000.dec8.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.s10000.dec8.hg38_chr20-64288745-64290884_c50.dot.svg (1.45 Mbytes)

cactus.minigraph.mask.chain256.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.chain256.hg38_chr20-64288745-64290884_c50.dot.svg (1.45 Mbytes)

cactus.minigraph.mask.chain512.hg38

Skipping large file: hpp60-hg38.cactus.minigraph.mask.chain512.hg38_chr20-64288745-64290884_c50.dot.svg (1.45 Mbytes)

chr20-34228192-34231418

chr20-34228192-34231418 small SD (0.999 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-13392721-13393728

chr20-13392721-13393728 small SD (0.906 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2942107-2943120

chr20-2942107-2943120 small SD (0.926 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2658582-2659582

chr20-2658582-2659582 GIAB <100bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4810724-4811724

chr20-4810724-4811724 GIAB <100bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-6664692-6665692

chr20-6664692-6665692 GIAB <100bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-392839-393363

chr20-392839-393363 GIAB <100bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-613583-614037

chr20-613583-614037 GIAB <100bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-14485460-14485924

chr20-14485460-14485924 GIAB <100bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-3052687-3053687

chr20-3052687-3053687 GIAB >200bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4101683-4102683

chr20-4101683-4102683 GIAB >200bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4446161-4447165

chr20-4446161-4447165 GIAB >200bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2014655-2017086

chr20-2014655-2017086 GIAB >200bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2883155-2883877

chr20-2883155-2883877 GIAB >200bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-5553699-5554475

chr20-5553699-5554475 GIAB >200bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

odgi viz

Images made using odgi viz.

chr20-420496-420995

chr20-420496-420995 SVs in cactus/seqwish/minigraph + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-1225490-1225989

chr20-1225490-1225989 SVs in cactus/seqwish/minigraph + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-1797986-1798485

chr20-1797986-1798485 SVs in cactus/seqwish/minigraph + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-16394873-16395372

chr20-16394873-16395372 SVs in cactus/seqwish + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-16395373-16395872

chr20-16395373-16395872 SVs in cactus/seqwish + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-38627201-38627700

chr20-38627201-38627700 SVs in cactus/seqwish + GIAB SVs

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-641366-642366

chr20-641366-642366 GIAB >200bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-818780-819780

chr20-818780-819780 GIAB >200bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2842273-2843273

chr20-2842273-2843273 GIAB >200bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2822301-2825963

chr20-2822301-2825963 GIAB >200bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-3057020-3057736

chr20-3057020-3057736 GIAB >200bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-16259367-16260184

chr20-16259367-16260184 GIAB >200bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-1225397-1226397

chr20-1225397-1226397 GIAB <100bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4224204-4225204

chr20-4224204-4225204 GIAB <100bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-13848038-13849038

chr20-13848038-13849038 GIAB <100bp INS in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2240863-2241346

chr20-2240863-2241346 GIAB <100bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-3441053-3441503

chr20-3441053-3441503 GIAB <100bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4227452-4227904

chr20-4227452-4227904 GIAB <100bp DEL in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-3516738-3518277

chr20-3516738-3518277 small SD (0.996 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-64288745-64290884

chr20-64288745-64290884 small SD (0.991 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-34228192-34231418

chr20-34228192-34231418 small SD (0.999 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-13392721-13393728

chr20-13392721-13393728 small SD (0.906 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2942107-2943120

chr20-2942107-2943120 small SD (0.926 sim)

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2658582-2659582

chr20-2658582-2659582 GIAB <100bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4810724-4811724

chr20-4810724-4811724 GIAB <100bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-6664692-6665692

chr20-6664692-6665692 GIAB <100bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-392839-393363

chr20-392839-393363 GIAB <100bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-613583-614037

chr20-613583-614037 GIAB <100bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-14485460-14485924

chr20-14485460-14485924 GIAB <100bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-3052687-3053687

chr20-3052687-3053687 GIAB >200bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4101683-4102683

chr20-4101683-4102683 GIAB >200bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-4446161-4447165

chr20-4446161-4447165 GIAB >200bp INS not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2014655-2017086

chr20-2014655-2017086 GIAB >200bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-2883155-2883877

chr20-2883155-2883877 GIAB >200bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38

chr20-5553699-5554475

chr20-5553699-5554475 GIAB >200bp DEL not in TR

Cactus Hub: cactus.star-single-copy-fatanc-og-july-7

Cactus Hub: cactus.minimap2_star-all-to-ref-fatanc-no-secondary-july-8

vg.linear.hg38

minigraph.L50-l50k.hg38

minigraph.default.hg38

cactus.minigraph.mask.rcit-50.hg38

cactus.minigraph.mask.rc1.20.hg38

cactus.minigraph.mask.dec8.hg38

cactus.minigraph.mask.s10000.dec8.hg38

cactus.minigraph.mask.chain256.hg38

cactus.minigraph.mask.chain512.hg38