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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 63,093 bioRxiv papers from 279,869 authors.

Author: Benedict Paten

Rankings

  • All-time downloads: 59,511 (rank: 201 out of 279,869)
  • Categories:
    • bioinformatics: 35,525 (rank: 50 out of 24,475)
    • evolutionary biology: 322 (rank: 9,921 (tie) out of 15,333)
    • genomics: 23,664 (rank: 248 out of 32,047)

Downloads per author, site-wide

Preprints

Progressive alignment with Cactus: a multiple-genome aligner for the thousand-genome era

genomics more details view paper

No bioRxiv download data for this paper yet.

Genome Graphs

bioinformatics more details view paper
  • Downloaded 7,608 times
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    • Site-wide: 179 out of 63,093
    • In bioinformatics: 31 out of 6,276
  • Year to date:
    • Site-wide: 931 out of 63,093
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    • Site-wide: 2,292 out of 63,093

Nanopore native RNA sequencing of a human poly(A) transcriptome

genomics more details view paper
  • Downloaded 6,691 times
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    • Site-wide: 246 out of 63,093
    • In genomics: 71 out of 4,333
  • Year to date:
    • Site-wide: 142 out of 63,093
  • Since beginning of last month:
    • Site-wide: 243 out of 63,093

Rapid and efficient analysis of 20,000 RNA-seq samples with Toil

bioinformatics more details view paper
  • Downloaded 5,758 times
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    • Site-wide: 316 out of 63,093
    • In bioinformatics: 59 out of 6,276
  • Year to date:
    • Site-wide: 2,899 out of 63,093
  • Since beginning of last month:
    • Site-wide: 4,155 out of 63,093

Efficient de novo assembly of eleven human genomes using PromethION sequencing and a novel nanopore toolkit

bioinformatics more details view paper
  • Downloaded 4,225 times
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    • In bioinformatics: 110 out of 6,276
  • Year to date:
    • Site-wide: 99 out of 63,093
  • Since beginning of last month:
    • Site-wide: 34 out of 63,093

Computational Pan-Genomics: Status, Promises and Challenges

genomics more details view paper
  • Downloaded 4,066 times
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    • In genomics: 162 out of 4,333
  • Year to date:
    • Site-wide: 9,629 out of 63,093
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    • Site-wide: 12,018 out of 63,093

Sequence variation aware genome references and read mapping with the variation graph toolkit

genomics more details view paper
  • Downloaded 3,426 times
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    • Site-wide: 847 out of 63,093
    • In genomics: 221 out of 4,333
  • Year to date:
    • Site-wide: 5,779 out of 63,093
  • Since beginning of last month:
    • Site-wide: 12,386 out of 63,093

Alignathon: A competitive assessment of whole genome alignment methods.

bioinformatics more details view paper
  • Downloaded 3,096 times
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    • In bioinformatics: 207 out of 6,276
  • Year to date:
    • Site-wide: 21,968 out of 63,093
  • Since beginning of last month:
    • Site-wide: 26,276 out of 63,093

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

bioinformatics more details view paper
  • Downloaded 2,753 times
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    • In bioinformatics: 260 out of 6,276
  • Year to date:
    • Site-wide: 215 out of 63,093
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    • Site-wide: 98 out of 63,093

Linear Assembly of a Human Y Centromere

genomics more details view paper
  • Downloaded 2,506 times
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    • In genomics: 340 out of 4,333
  • Year to date:
    • Site-wide: 28,131 out of 63,093
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    • Site-wide: 29,451 out of 63,093

Haplotype-aware genotyping from noisy long reads

bioinformatics more details view paper
  • Downloaded 2,372 times
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    • Site-wide: 1,655 out of 63,093
    • In bioinformatics: 333 out of 6,276
  • Year to date:
    • Site-wide: 1,934 out of 63,093
  • Since beginning of last month:
    • Site-wide: 10,667 out of 63,093

Cytosine Variant Calling with High-throughput Nanopore Sequencing

genomics more details view paper
  • Downloaded 1,951 times
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    • Site-wide: 2,349 out of 63,093
    • In genomics: 491 out of 4,333
  • Year to date:
    • Site-wide: 32,798 out of 63,093
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    • Site-wide: 27,077 out of 63,093

Chromosome assembly of large and complex genomes using multiple references

bioinformatics more details view paper
  • Downloaded 1,609 times
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    • Site-wide: 3,234 out of 63,093
    • In bioinformatics: 654 out of 6,276
  • Year to date:
    • Site-wide: 33,303 out of 63,093
  • Since beginning of last month:
    • Site-wide: 26,860 out of 63,093

Comparative Annotation Toolkit (CAT) - simultaneous clade and personal genome annotation

bioinformatics more details view paper
  • Downloaded 1,471 times
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    • In bioinformatics: 754 out of 6,276
  • Year to date:
    • Site-wide: 6,138 out of 63,093
  • Since beginning of last month:
    • Site-wide: 18,446 out of 63,093

A Graph Extension of the Positional Burrows-Wheeler Transform and its Applications

bioinformatics more details view paper
  • Downloaded 1,340 times
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    • Site-wide: 4,391 out of 63,093
    • In bioinformatics: 864 out of 6,276
  • Year to date:
    • Site-wide: 46,256 out of 63,093
  • Since beginning of last month:
    • Site-wide: 49,359 out of 63,093

Genome Graphs and the Evolution of Genome Inference

bioinformatics more details view paper
  • Downloaded 1,246 times
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    • Site-wide: 4,948 out of 63,093
    • In bioinformatics: 965 out of 6,276
  • Year to date:
    • Site-wide: 43,988 out of 63,093
  • Since beginning of last month:
    • Site-wide: 40,308 out of 63,093

The UCSC Genome Browser database: 2016 update

genomics more details view paper
  • Downloaded 1,244 times
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    • Site-wide: 4,961 out of 63,093
    • In genomics: 864 out of 4,333
  • Year to date:
    • Site-wide: 53,132 out of 63,093
  • Since beginning of last month:
    • Site-wide: 25,079 out of 63,093

Multiple laboratory mouse reference genomes define strain specific haplotypes and novel functional loci

genomics more details view paper
  • Downloaded 1,156 times
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    • Site-wide: 5,611 out of 63,093
    • In genomics: 947 out of 4,333
  • Year to date:
    • Site-wide: 11,798 out of 63,093
  • Since beginning of last month:
    • Site-wide: 18,074 out of 63,093

Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes

genomics more details view paper
  • Downloaded 1,021 times
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    • Site-wide: 6,880 out of 63,093
    • In genomics: 1,118 out of 4,333
  • Year to date:
    • Site-wide: 53,164 out of 63,093
  • Since beginning of last month:
    • Site-wide: 42,853 out of 63,093

Superbubbles, Ultrabubbles and Cacti

bioinformatics more details view paper
  • Downloaded 968 times
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    • Site-wide: 7,471 out of 63,093
    • In bioinformatics: 1,340 out of 6,276
  • Year to date:
    • Site-wide: 26,784 out of 63,093
  • Since beginning of last month:
    • Site-wide: 14,220 out of 63,093

A Flow Procedure for the Linearization of Genome Sequence Graphs.

bioinformatics more details view paper
  • Downloaded 883 times
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    • Site-wide: 8,693 out of 63,093
    • In bioinformatics: 1,530 out of 6,276
  • Year to date:
    • Site-wide: 37,061 out of 63,093
  • Since beginning of last month:
    • Site-wide: 20,353 out of 63,093

Genotyping structural variants in pangenome graphs using the vg toolkit

bioinformatics more details view paper
  • Downloaded 737 times
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    • Site-wide: 11,346 out of 63,093
    • In bioinformatics: 1,912 out of 6,276
  • Year to date:
    • Site-wide: 2,529 out of 63,093
  • Since beginning of last month:
    • Site-wide: 2,707 out of 63,093

The genome of C57BL/6J "Eve", the mother of the laboratory mouse genome reference strain

genomics more details view paper
  • Downloaded 653 times
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    • Site-wide: 13,489 out of 63,093
    • In genomics: 1,806 out of 4,333
  • Year to date:
    • Site-wide: 3,140 out of 63,093
  • Since beginning of last month:
    • Site-wide: 17,171 out of 63,093

Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling

genomics more details view paper
  • Downloaded 549 times
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    • Site-wide: 17,109 out of 63,093
    • In genomics: 2,113 out of 4,333
  • Year to date:
    • Site-wide: 53,661 out of 63,093
  • Since beginning of last month:
    • Site-wide: 60,841 out of 63,093

Haplotype-aware graph indexes

bioinformatics more details view paper
  • Downloaded 539 times
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    • Site-wide: 17,546 out of 63,093
    • In bioinformatics: 2,650 out of 6,276
  • Year to date:
    • Site-wide: 4,369 out of 63,093
  • Since beginning of last month:
    • Site-wide: 22,496 out of 63,093

Modelling haplotypes with respect to reference cohort variation graphs

genomics more details view paper
  • Downloaded 401 times
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    • In genomics: 2,649 out of 4,333
  • Year to date:
    • Site-wide: 53,718 out of 63,093
  • Since beginning of last month:
    • Site-wide: 50,544 out of 63,093

Describing the Local Structure of Sequence Graphs

bioinformatics more details view paper
  • Downloaded 381 times
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    • Site-wide: 26,281 out of 63,093
    • In bioinformatics: 3,585 out of 6,276
  • Year to date:
    • Site-wide: 60,467 out of 63,093
  • Since beginning of last month:
    • Site-wide: 60,312 out of 63,093

KRAB Zinc Finger Proteins coordinate across evolutionary time scales to battle retroelements

evolutionary biology more details view paper
  • Downloaded 322 times
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    • Site-wide: 31,028 out of 63,093
    • In evolutionary biology: 2,378 out of 4,248
  • Year to date:
    • Site-wide: 22,528 out of 63,093
  • Since beginning of last month:
    • Site-wide: 17,233 out of 63,093

ProTECT: Prediction of T-cell Epitopes for Cancer Therapy

bioinformatics more details view paper
  • Downloaded 321 times
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    • Site-wide: 31,149 out of 63,093
    • In bioinformatics: 4,003 out of 6,276
  • Year to date:
    • Site-wide: 10,334 out of 63,093
  • Since beginning of last month:
    • Site-wide: 16,856 out of 63,093

A Bayesian Framework for Detecting Gene Expression Outliers in Individual Samples

bioinformatics more details view paper
  • Downloaded 218 times
  • Download rankings, all-time:
    • Site-wide: 41,957 out of 63,093
    • In bioinformatics: 4,895 out of 6,276
  • Year to date:
    • Site-wide: 18,136 out of 63,093
  • Since beginning of last month:
    • Site-wide: 36,419 out of 63,093

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