Description

This track represents copy number estimates. Copy number is estimated over 500 bp windows of uniquely mappable sequence. Sequences are colored from cold to hot (0 - 120+) and exact copy can be found by clicking on the region of interest.

Code Availability

GitHub

Copy Number Key

Copy numberColor
0
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1
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2
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3
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4
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5
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6
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7
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8
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9
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10
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20
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30
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40
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50
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60
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70
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80
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90
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100
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110
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120
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Credits

Please feel free to contact William Harvey or Mitchell Vollger with any questions and/or concerns regarding this track.

References

Bailey JA, Gu Z, Clark RA, Reinert K, Samonte RV, Schwartz S, Adams MD, Myers EW, Li PW, Eichler EE. Recent segmental duplications in the human genome. Science 2002

Pendleton AL, Shen F, Taravella AM, Emery S, Veeramah KR, Boyko AR, Kidd JM. Comparison of village dog and wolf genomes highlights the role of the neural crest in dog domestication. BMC Biol. 2018

Sudmant PH, Mallick S, Nelson BJ, Hormozdiari F, Krumm N, Huddleston J, et al. Global diversity, population stratification, and selection of human copy-number variation. Science. 2015

Sudmant PH, Kitzman JO, Antonacci F, Alkan C, Malig M, Tsalenko A, et al. Diversity of human copy number. Science. 2010

Sample table

SampleRead file
HGDP01272/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01272.sorted.cram
HGDP01092/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01092.sorted.cram
HGDP00454/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00454.sorted.cram
HGDP00920/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00920.sorted.cram
HGDP00944/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00944.sorted.cram
HGDP00984/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00984.sorted.cram
HGDP01031/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01031.sorted.cram
HGDP00993/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00993.sorted.cram
HGDP00458/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00458.sorted.cram
HGDP00463/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00463.sorted.cram
HGDP00473/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00473.sorted.cram
HGDP01270/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01270.sorted.cram
HGDP00942/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00942.sorted.cram
HGDP00925/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00925.sorted.cram
HGDP00453/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00453.sorted.cram
HGDP01265/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01265.sorted.cram
HGDP00466/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00466.sorted.cram
HGDP01262/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01262.sorted.cram
HGDP00467/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00467.sorted.cram
HGDP00911/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00911.sorted.cram
HGDP01029/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01029.sorted.cram
HGDP00931/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00931.sorted.cram
HGDP00930/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00930.sorted.cram
HGDP01261/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01261.sorted.cram
HGDP01275/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01275.sorted.cram
HGDP00935/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00935.sorted.cram
HGDP00940/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00940.sorted.cram
HGDP01257/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01257.sorted.cram
HGDP00471/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00471.sorted.cram
HGDP00465/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00465.sorted.cram
HGDP00479/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00479.sorted.cram
HGDP01266/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01266.sorted.cram
HGDP00470/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00470.sorted.cram
HGDP00981/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00981.sorted.cram
HGDP01408/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01408.sorted.cram
HGDP00986/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00986.sorted.cram
HGDP00904/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00904.sorted.cram
HGDP00468/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00468.sorted.cram
HGDP00983/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00983.sorted.cram
HGDP01406/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01406.sorted.cram
HGDP00452/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00452.sorted.cram
HGDP01255/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01255.sorted.cram
HGDP01418/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01418.sorted.cram
HGDP01411/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01411.sorted.cram
HGDP00478/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00478.sorted.cram
HGDP00464/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00464.sorted.cram
HGDP00917/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00917.sorted.cram
HGDP00908/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00908.sorted.cram
HGDP00943/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP00943.sorted.cram
HGDP01033/net/eichler/vol27/projects/human_diversity/nobackups/HGDP_highCov/mergeCRAM/HGDP01033.sorted.cram