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Author: Adam M. Phillippy

Rankings

  • All-time downloads: 98,968 (rank: 1,391 )
  • Categories:
    • bioinformatics: 44,808 (rank: 69 )
    • genomics: 54,160 (rank: 171 )

Downloads per author, site-wide

Preprints

Merfin: improved variant filtering and polishing via k-mer validation

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The complete sequence of a human genome

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  • Downloaded 33,007 times
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    • Site-wide: 223
    • In genomics: 10
  • Year to date:
    • Site-wide: 43
  • Since beginning of last month:
    • Site-wide: 67

Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation

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  • Downloaded 8,488 times
  • Download rankings, all-time:
    • Site-wide: 1,151
    • In bioinformatics: 65
  • Year to date:
    • Site-wide: 26,408
  • Since beginning of last month:
    • Site-wide: 45,013

Mash: fast genome and metagenome distance estimation using MinHash

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  • Downloaded 6,723 times
  • Download rankings, all-time:
    • Site-wide: 1,538
    • In bioinformatics: 95
  • Year to date:
    • Site-wide: 47,988
  • Since beginning of last month:
    • Site-wide: 95,108

Telomere-to-telomere assembly of a complete human X chromosome

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  • Downloaded 6,568 times
  • Download rankings, all-time:
    • Site-wide: 1,591
    • In bioinformatics: 101
  • Year to date:
    • Site-wide: 11,615
  • Since beginning of last month:
    • Site-wide: 21,350

Towards complete and error-free genome assemblies of all vertebrate species

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  • Downloaded 5,770 times
  • Download rankings, all-time:
    • Site-wide: 1,904
    • In genomics: 164
  • Year to date:
    • Site-wide: 1,515
  • Since beginning of last month:
    • Site-wide: 5,982

A fast approximate algorithm for mapping long reads to large reference databases

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  • Downloaded 4,658 times
  • Download rankings, all-time:
    • Site-wide: 2,561
    • In bioinformatics: 212
  • Year to date:
    • Site-wide: 17,417
  • Since beginning of last month:
    • Site-wide: 29,782

Improved Aedes aegypti mosquito reference genome assembly enables biological discovery and vector control

genomics more details view paper
  • Downloaded 3,674 times
  • Download rankings, all-time:
    • Site-wide: 3,591
    • In genomics: 379
  • Year to date:
    • Site-wide: 49,218
  • Since beginning of last month:
    • Site-wide: 56,262

High-throughput ANI Analysis of 90K Prokaryotic Genomes Reveals Clear Species Boundaries

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  • Downloaded 3,491 times
  • Download rankings, all-time:
    • Site-wide: 3,849
    • In bioinformatics: 371
  • Year to date:
    • Site-wide: 27,351
  • Since beginning of last month:
    • Site-wide: 29,294

HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads

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  • Downloaded 3,445 times
  • Download rankings, all-time:
    • Site-wide: 3,915
    • In bioinformatics: 379
  • Year to date:
    • Site-wide: 8,674
  • Since beginning of last month:
    • Site-wide: 13,685

A Fast Adaptive Algorithm for Computing Whole-Genome Homology Maps

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  • Downloaded 2,239 times
  • Download rankings, all-time:
    • Site-wide: 7,333
    • In bioinformatics: 836
  • Year to date:
    • Site-wide: 61,312
  • Since beginning of last month:
    • Site-wide: 124,547

Epigenetic Patterns in a Complete Human Genome

genomics more details view paper
  • Downloaded 2,236 times
  • Download rankings, all-time:
    • Site-wide: 7,349
    • In genomics: 771
  • Year to date:
    • Site-wide: 997
  • Since beginning of last month:
    • Site-wide: 718

Automated ensemble assembly and validation of microbial genomes

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  • Downloaded 2,046 times
  • Download rankings, all-time:
    • Site-wide: 8,322
    • In bioinformatics: 947
  • Year to date:
    • Site-wide: 126,092
  • Since beginning of last month:
    • Site-wide: 94,981

The whale shark genome reveals patterns of vertebrate gene family evolution

genomics more details view paper
  • Downloaded 1,794 times
  • Download rankings, all-time:
    • Site-wide: 10,154
    • In genomics: 1,052
  • Year to date:
    • Site-wide: 14,037
  • Since beginning of last month:
    • Site-wide: 18,741

Mash Screen: High-throughput sequence containment estimation for genome discovery

bioinformatics more details view paper
  • Downloaded 1,703 times
  • Download rankings, all-time:
    • Site-wide: 10,965
    • In bioinformatics: 1,279
  • Year to date:
    • Site-wide: 108,637
  • Since beginning of last month:
    • Site-wide: 122,496

A complete reference genome improves analysis of human genetic variation

genomics more details view paper
  • Downloaded 1,685 times
  • Download rankings, all-time:
    • Site-wide: 11,130
    • In genomics: 1,155
  • Year to date:
    • Site-wide: 1,441
  • Since beginning of last month:
    • Site-wide: 100

MetaMaps - Strain-level metagenomic assignment and compositional estimation for long reads

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  • Downloaded 1,679 times
  • Download rankings, all-time:
    • Site-wide: 11,188
    • In bioinformatics: 1,311
  • Year to date:
    • Site-wide: 84,451
  • Since beginning of last month:
    • Site-wide: 112,077

Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies

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  • Downloaded 1,645 times
  • Download rankings, all-time:
    • Site-wide: 11,558
    • In bioinformatics: 1,352
  • Year to date:
    • Site-wide: 16,431
  • Since beginning of last month:
    • Site-wide: 53,773

RefSeq database growth influences the accuracy of k-mer-based species identification

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  • Downloaded 1,507 times
  • Download rankings, all-time:
    • Site-wide: 13,073
    • In bioinformatics: 1,509
  • Year to date:
    • Site-wide: 111,501
  • Since beginning of last month:
    • Site-wide: 137,231

Segmental duplications and their variation in a complete human genome

genomics more details view paper
  • Downloaded 1,185 times
  • Download rankings, all-time:
    • Site-wide: 18,788
    • In genomics: 1,840
  • Year to date:
    • Site-wide: 2,323
  • Since beginning of last month:
    • Site-wide: 1,325

Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies

genomics more details view paper
  • Downloaded 1,090 times
  • Download rankings, all-time:
    • Site-wide: 21,258
    • In genomics: 2,047
  • Year to date:
    • Site-wide: 93,824
  • Since beginning of last month:
    • Site-wide: 84,540

Complete genomic and epigenetic maps of human centromeres

genomics more details view paper
  • Downloaded 1,003 times
  • Download rankings, all-time:
    • Site-wide: 23,992
    • In genomics: 2,260
  • Year to date:
    • Site-wide: 2,940
  • Since beginning of last month:
    • Site-wide: 176

Complete vertebrate mitogenomes reveal widespread gene duplications and repeats

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  • Downloaded 938 times
  • Download rankings, all-time:
    • Site-wide: 26,511
    • In genomics: 2,439
  • Year to date:
    • Site-wide: 10,949
  • Since beginning of last month:
    • Site-wide: 43,099

From telomere to telomere: the transcriptional and epigenetic state of human repeat elements

genomics more details view paper
  • Downloaded 848 times
  • Download rankings, all-time:
    • Site-wide: 30,538
    • In genomics: 2,699
  • Year to date:
    • Site-wide: 3,726
  • Since beginning of last month:
    • Site-wide: 222

Chasing perfection: validation and polishing strategies for telomere-to-telomere genome assemblies

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  • Downloaded 648 times
  • Download rankings, all-time:
    • Site-wide: 44,043
    • In genomics: 3,536
  • Year to date:
    • Site-wide: 5,532
  • Since beginning of last month:
    • Site-wide: 312

A chromosome-scale assembly of the major African malaria vector Anopheles funestus

bioinformatics more details view paper
  • Downloaded 616 times
  • Download rankings, all-time:
    • Site-wide: 46,922
    • In bioinformatics: 4,893
  • Year to date:
    • Site-wide: 122,540
  • Since beginning of last month:
    • Site-wide: 129,658

False gene and chromosome losses affected by assembly and sequence errors

genomics more details view paper
  • Downloaded 282 times
  • Download rankings, all-time:
    • Site-wide: 100,701
    • In genomics: 6,076
  • Year to date:
    • Site-wide: 18,231
  • Since beginning of last month:
    • Site-wide: 30,519

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