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Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 60,233 bioRxiv papers from 267,795 authors.

Author: Adam M Phillippy

  • ORCiD: http://orcid.org/0000-0003-2983-8934
  • Most recently observed institution: Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health

Rankings

  • All-time downloads: 81,953 (rank: 90 out of 267,795)
  • Categories:
    • bioinformatics: 47,821 (rank: 41 out of 23,889)
    • genetics: 340 (rank: 18,747 (tie) out of 27,063)
    • genomics: 32,754 (rank: 170 out of 31,251)
    • microbiology: 1,038 (rank: 3,043 (tie) out of 27,452)

Downloads per author, site-wide

Preprints

Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing

bioinformatics more details view paper
  • Downloaded 10,731 times
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    • Site-wide: 91 out of 60,233
    • In bioinformatics: 16 out of 6,078
  • Year to date:
    • Site-wide: 3,352 out of 60,233
  • Since beginning of last month:
    • Site-wide: 2,675 out of 60,233

Highly-accurate long-read sequencing improves variant detection and assembly of a human genome

genomics more details view paper
  • Downloaded 9,284 times
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    • Site-wide: 118 out of 60,233
    • In genomics: 39 out of 4,181
  • Year to date:
    • Site-wide: 16 out of 60,233
  • Since beginning of last month:
    • Site-wide: 82 out of 60,233

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

bioinformatics more details view paper
  • Downloaded 7,533 times
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    • Site-wide: 174 out of 60,233
    • In bioinformatics: 30 out of 6,078
  • Year to date:
    • Site-wide: 4,897 out of 60,233
  • Since beginning of last month:
    • Site-wide: 6,763 out of 60,233

Mash: fast genome and metagenome distance estimation using MinHash

bioinformatics more details view paper
  • Downloaded 6,326 times
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    • In bioinformatics: 46 out of 6,078
  • Year to date:
    • Site-wide: 15,141 out of 60,233
  • Since beginning of last month:
    • Site-wide: 9,519 out of 60,233

Integrating Hi-C links with assembly graphs for chromosome-scale assembly

bioinformatics more details view paper
  • Downloaded 5,816 times
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    • Site-wide: 299 out of 60,233
    • In bioinformatics: 56 out of 6,078
  • Year to date:
    • Site-wide: 271 out of 60,233
  • Since beginning of last month:
    • Site-wide: 821 out of 60,233

Complete assembly of parental haplotypes with trio binning

genomics more details view paper
  • Downloaded 4,979 times
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    • In genomics: 102 out of 4,181
  • Year to date:
    • Site-wide: 733 out of 60,233
  • Since beginning of last month:
    • Site-wide: 1,829 out of 60,233

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

bioinformatics more details view paper
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    • In bioinformatics: 138 out of 6,078
  • Year to date:
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    • Site-wide: 6,484 out of 60,233

Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes

genomics more details view paper
  • Downloaded 3,052 times
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    • In genomics: 249 out of 4,181
  • Year to date:
    • Site-wide: 23,447 out of 60,233
  • Since beginning of last month:
    • Site-wide: 23,691 out of 60,233

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

genomics more details view paper
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    • In genomics: 250 out of 4,181
  • Year to date:
    • Site-wide: 3,864 out of 60,233
  • Since beginning of last month:
    • Site-wide: 3,692 out of 60,233

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

bioinformatics more details view paper
  • Downloaded 2,806 times
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    • In bioinformatics: 248 out of 6,078
  • Year to date:
    • Site-wide: 7,437 out of 60,233
  • Since beginning of last month:
    • Site-wide: 15,359 out of 60,233

Extended haplotype phasing of de novo genome assemblies with FALCON-Phase

genomics more details view paper
  • Downloaded 2,593 times
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    • Site-wide: 1,346 out of 60,233
    • In genomics: 315 out of 4,181
  • Year to date:
    • Site-wide: 1,215 out of 60,233
  • Since beginning of last month:
    • Site-wide: 1,466 out of 60,233

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

bioinformatics more details view paper
  • Downloaded 2,298 times
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    • In bioinformatics: 341 out of 6,078
  • Year to date:
    • Site-wide: 248 out of 60,233
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    • Site-wide: 13 out of 60,233

A robust benchmark for germline structural variant detection

genomics more details view paper
  • Downloaded 2,103 times
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    • In genomics: 433 out of 4,181
  • Year to date:
    • Site-wide: 306 out of 60,233
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    • Site-wide: 274 out of 60,233

Automated ensemble assembly and validation of microbial genomes

bioinformatics more details view paper
  • Downloaded 1,904 times
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    • Site-wide: 2,338 out of 60,233
    • In bioinformatics: 482 out of 6,078
  • Year to date:
    • Site-wide: 56,524 out of 60,233
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Long-read, whole genome shotgun sequence data for five model organisms

genomics more details view paper
  • Downloaded 1,809 times
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    • Site-wide: 2,554 out of 60,233
    • In genomics: 524 out of 4,181
  • Year to date:
    • Site-wide: 29,212 out of 60,233
  • Since beginning of last month:
    • Site-wide: 25,198 out of 60,233

A Fast Adaptive Algorithm for Computing Whole-Genome Homology Maps

bioinformatics more details view paper
  • Downloaded 1,774 times
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    • In bioinformatics: 535 out of 6,078
  • Year to date:
    • Site-wide: 8,926 out of 60,233
  • Since beginning of last month:
    • Site-wide: 22,992 out of 60,233

De Novo assembly of the goldfish (Carassius auratus) genome and the evolution of genes after whole genome duplication

genomics more details view paper
  • Downloaded 1,697 times
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    • In genomics: 574 out of 4,181
  • Year to date:
    • Site-wide: 3,474 out of 60,233
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    • Site-wide: 11,606 out of 60,233

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

bioinformatics more details view paper
  • Downloaded 1,297 times
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    • Site-wide: 4,465 out of 60,233
    • In bioinformatics: 888 out of 6,078
  • Year to date:
    • Site-wide: 21,061 out of 60,233
  • Since beginning of last month:
    • Site-wide: 12,628 out of 60,233

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

bioinformatics more details view paper
  • Downloaded 1,280 times
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    • Site-wide: 4,539 out of 60,233
    • In bioinformatics: 903 out of 6,078
  • Year to date:
    • Site-wide: 7,344 out of 60,233
  • Since beginning of last month:
    • Site-wide: 10,069 out of 60,233

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

bioinformatics more details view paper
  • Downloaded 1,173 times
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    • Site-wide: 5,231 out of 60,233
    • In bioinformatics: 1,008 out of 6,078
  • Year to date:
    • Site-wide: 981 out of 60,233
  • Since beginning of last month:
    • Site-wide: 1,085 out of 60,233

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

genomics more details view paper
  • Downloaded 1,142 times
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    • Site-wide: 5,492 out of 60,233
    • In genomics: 935 out of 4,181
  • Year to date:
    • Site-wide: 28,969 out of 60,233
  • Since beginning of last month:
    • Site-wide: 17,001 out of 60,233

Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation

microbiology more details view paper
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    • In microbiology: 250 out of 4,826
  • Year to date:
    • Site-wide: 2,753 out of 60,233
  • Since beginning of last month:
    • Site-wide: 15,775 out of 60,233

Analysis of the Aedes albopictus C6/36 genome provides insight into cell line adaptations to in vitro viral propagation

genomics more details view paper
  • Downloaded 734 times
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    • Site-wide: 10,947 out of 60,233
    • In genomics: 1,570 out of 4,181
  • Year to date:
    • Site-wide: 43,012 out of 60,233
  • Since beginning of last month:
    • Site-wide: 44,070 out of 60,233

Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies

genomics more details view paper
  • Downloaded 690 times
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    • Site-wide: 11,995 out of 60,233
    • In genomics: 1,669 out of 4,181
  • Year to date:
    • Site-wide: 6,870 out of 60,233
  • Since beginning of last month:
    • Site-wide: 11,734 out of 60,233

An improved pig reference genome sequence to enable pig genetics and genomics research

genomics more details view paper
  • Downloaded 568 times
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    • Site-wide: 15,641 out of 60,233
    • In genomics: 1,987 out of 4,181
  • Year to date:
    • Site-wide: 3,481 out of 60,233
  • Since beginning of last month:
    • Site-wide: 2,853 out of 60,233

The whale shark genome reveals patterns of vertebrate gene family evolution

genomics more details view paper
  • Downloaded 565 times
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    • Site-wide: 15,764 out of 60,233
    • In genomics: 1,994 out of 4,181
  • Year to date:
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  • Since beginning of last month:
    • Site-wide: 3,349 out of 60,233

HLA*PRG:LA - HLA typing from linearly projected graph alignments

bioinformatics more details view paper
  • Downloaded 554 times
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    • Site-wide: 16,162 out of 60,233
    • In bioinformatics: 2,521 out of 6,078
  • Year to date:
    • Site-wide: 13,037 out of 60,233
  • Since beginning of last month:
    • Site-wide: 23,048 out of 60,233

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

bioinformatics more details view paper
  • Downloaded 455 times
  • Download rankings, all-time:
    • Site-wide: 20,638 out of 60,233
    • In bioinformatics: 3,023 out of 6,078
  • Year to date:
    • Site-wide: 9,687 out of 60,233
  • Since beginning of last month:
    • Site-wide: 18,684 out of 60,233

The evolution of the natural killer complex; a comparison between mammals using new high-quality genome assemblies and targeted annotation

genetics more details view paper
  • Downloaded 340 times
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    • Site-wide: 28,085 out of 60,233
    • In genetics: 1,814 out of 3,435
  • Year to date:
    • Site-wide: 52,603 out of 60,233
  • Since beginning of last month:
    • Site-wide: 53,978 out of 60,233

Haplotype-Resolved Cattle Genomes Provide Insights Into Structural Variation and Adaptation

genomics more details view paper
  • Downloaded 334 times
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    • Site-wide: 28,565 out of 60,233
    • In genomics: 2,857 out of 4,181
  • Year to date:
    • Site-wide: 8,361 out of 60,233
  • Since beginning of last month:
    • Site-wide: 500 out of 60,233

Chromosome-length haplotigs for yak and cattle from trio binning assembly of an F1 hybrid

bioinformatics more details view paper
  • Downloaded 211 times
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    • Site-wide: 40,939 out of 60,233
    • In bioinformatics: 4,801 out of 6,078
  • Year to date:
    • Site-wide: 16,557 out of 60,233
  • Since beginning of last month:
    • Site-wide: 1,133 out of 60,233

Strains used in whole organism Plasmodium falciparum vaccine trials differ in genome structure, sequence, and immunogenic potential

genomics more details view paper
  • Downloaded 170 times
  • Download rankings, all-time:
    • Site-wide: 46,054 out of 60,233
    • In genomics: 3,689 out of 4,181
  • Year to date:
    • Site-wide: 21,656 out of 60,233
  • Since beginning of last month:
    • Site-wide: 15,582 out of 60,233

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