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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 60,240 bioRxiv papers from 267,843 authors.

Author: Benedict Paten

Rankings

  • All-time downloads: 57,938 (rank: 205 out of 268,131)
  • Categories:
    • bioinformatics: 33,648 (rank: 51 out of 23,906)
    • evolutionary biology: 307 (rank: 9,866 (tie) out of 14,815)
    • genomics: 23,983 (rank: 234 out of 31,268)

Downloads per author, site-wide

Preprints

Genome Graphs

bioinformatics more details view paper
  • Downloaded 7,491 times
  • Download rankings, all-time:
    • Site-wide: 178 out of 60,323
    • In bioinformatics: 32 out of 6,078
  • Year to date:
    • Site-wide: 971 out of 60,323
  • Since beginning of last month:
    • Site-wide: 2,472 out of 60,323

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

genomics more details view paper
  • Downloaded 6,304 times
  • Download rankings, all-time:
    • Site-wide: 252 out of 60,323
    • In genomics: 73 out of 4,181
  • Year to date:
    • Site-wide: 152 out of 60,323
  • Since beginning of last month:
    • Site-wide: 297 out of 60,323

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

bioinformatics more details view paper
  • Downloaded 5,718 times
  • Download rankings, all-time:
    • Site-wide: 310 out of 60,323
    • In bioinformatics: 59 out of 6,078
  • Year to date:
    • Site-wide: 2,810 out of 60,323
  • Since beginning of last month:
    • Site-wide: 2,296 out of 60,323

Computational Pan-Genomics: Status, Promises and Challenges

genomics more details view paper
  • Downloaded 4,044 times
  • Download rankings, all-time:
    • Site-wide: 592 out of 60,323
    • In genomics: 158 out of 4,181
  • Year to date:
    • Site-wide: 9,356 out of 60,323
  • Since beginning of last month:
    • Site-wide: 9,475 out of 60,323

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

genomics more details view paper
  • Downloaded 3,408 times
  • Download rankings, all-time:
    • Site-wide: 826 out of 60,323
    • In genomics: 215 out of 4,181
  • Year to date:
    • Site-wide: 5,384 out of 60,323
  • Since beginning of last month:
    • Site-wide: 9,727 out of 60,323

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

bioinformatics more details view paper
  • Downloaded 3,245 times
  • Download rankings, all-time:
    • Site-wide: 898 out of 60,323
    • In bioinformatics: 179 out of 6,078
  • Year to date:
    • Site-wide: 133 out of 60,323
  • Since beginning of last month:
    • Site-wide: 16 out of 60,323

Alignathon: A competitive assessment of whole genome alignment methods.

bioinformatics more details view paper
  • Downloaded 3,081 times
  • Download rankings, all-time:
    • Site-wide: 985 out of 60,323
    • In bioinformatics: 202 out of 6,078
  • Year to date:
    • Site-wide: 21,508 out of 60,323
  • Since beginning of last month:
    • Site-wide: 30,573 out of 60,323

Linear Assembly of a Human Y Centromere

genomics more details view paper
  • Downloaded 2,489 times
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    • Site-wide: 1,447 out of 60,323
    • In genomics: 336 out of 4,181
  • Year to date:
    • Site-wide: 28,424 out of 60,323
  • Since beginning of last month:
    • Site-wide: 37,582 out of 60,323

Haplotype-aware genotyping from noisy long reads

bioinformatics more details view paper
  • Downloaded 2,350 times
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    • Site-wide: 1,622 out of 60,323
    • In bioinformatics: 322 out of 6,078
  • Year to date:
    • Site-wide: 1,779 out of 60,323
  • Since beginning of last month:
    • Site-wide: 5,853 out of 60,323

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

bioinformatics more details view paper
  • Downloaded 2,298 times
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    • Site-wide: 1,690 out of 60,323
    • In bioinformatics: 340 out of 6,078
  • Year to date:
    • Site-wide: 248 out of 60,323
  • Since beginning of last month:
    • Site-wide: 13 out of 60,323

Cytosine Variant Calling with High-throughput Nanopore Sequencing

genomics more details view paper
  • Downloaded 1,935 times
  • Download rankings, all-time:
    • Site-wide: 2,284 out of 60,323
    • In genomics: 483 out of 4,181
  • Year to date:
    • Site-wide: 33,180 out of 60,323
  • Since beginning of last month:
    • Site-wide: 22,965 out of 60,323

Chromosome assembly of large and complex genomes using multiple references

bioinformatics more details view paper
  • Downloaded 1,593 times
  • Download rankings, all-time:
    • Site-wide: 3,168 out of 60,323
    • In bioinformatics: 644 out of 6,078
  • Year to date:
    • Site-wide: 33,732 out of 60,323
  • Since beginning of last month:
    • Site-wide: 27,514 out of 60,323

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

bioinformatics more details view paper
  • Downloaded 1,448 times
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    • Site-wide: 3,732 out of 60,323
    • In bioinformatics: 749 out of 6,078
  • Year to date:
    • Site-wide: 5,880 out of 60,323
  • Since beginning of last month:
    • Site-wide: 27,826 out of 60,323

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

bioinformatics more details view paper
  • Downloaded 1,335 times
  • Download rankings, all-time:
    • Site-wide: 4,253 out of 60,323
    • In bioinformatics: 841 out of 6,078
  • Year to date:
    • Site-wide: 43,911 out of 60,323
  • Since beginning of last month:
    • Site-wide: 42,570 out of 60,323

Genome Graphs and the Evolution of Genome Inference

bioinformatics more details view paper
  • Downloaded 1,238 times
  • Download rankings, all-time:
    • Site-wide: 4,797 out of 60,323
    • In bioinformatics: 942 out of 6,078
  • Year to date:
    • Site-wide: 42,590 out of 60,323
  • Since beginning of last month:
    • Site-wide: 27,859 out of 60,323

The UCSC Genome Browser database: 2016 update

genomics more details view paper
  • Downloaded 1,237 times
  • Download rankings, all-time:
    • Site-wide: 4,799 out of 60,323
    • In genomics: 851 out of 4,181
  • Year to date:
    • Site-wide: 51,781 out of 60,323
  • Since beginning of last month:
    • Site-wide: 24,134 out of 60,323

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

genomics more details view paper
  • Downloaded 1,139 times
  • Download rankings, all-time:
    • Site-wide: 5,526 out of 60,323
    • In genomics: 941 out of 4,181
  • Year to date:
    • Site-wide: 11,333 out of 60,323
  • Since beginning of last month:
    • Site-wide: 13,656 out of 60,323

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

genomics more details view paper
  • Downloaded 1,015 times
  • Download rankings, all-time:
    • Site-wide: 6,691 out of 60,323
    • In genomics: 1,105 out of 4,181
  • Year to date:
    • Site-wide: 51,143 out of 60,323
  • Since beginning of last month:
    • Site-wide: 45,151 out of 60,323

Superbubbles, Ultrabubbles and Cacti

bioinformatics more details view paper
  • Downloaded 934 times
  • Download rankings, all-time:
    • Site-wide: 7,599 out of 60,323
    • In bioinformatics: 1,359 out of 6,078
  • Year to date:
    • Site-wide: 30,663 out of 60,323
  • Since beginning of last month:
    • Site-wide: 43,884 out of 60,323

A Flow Procedure for the Linearization of Genome Sequence Graphs.

bioinformatics more details view paper
  • Downloaded 862 times
  • Download rankings, all-time:
    • Site-wide: 8,654 out of 60,323
    • In bioinformatics: 1,523 out of 6,078
  • Year to date:
    • Site-wide: 39,426 out of 60,323
  • Since beginning of last month:
    • Site-wide: 46,640 out of 60,323

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

genomics more details view paper
  • Downloaded 840 times
  • Download rankings, all-time:
    • Site-wide: 9,015 out of 60,323
    • In genomics: 1,376 out of 4,181
  • Year to date:
    • Site-wide: 1,784 out of 60,323
  • Since beginning of last month:
    • Site-wide: 89 out of 60,323

Genotyping structural variants in pangenome graphs using the vg toolkit

bioinformatics more details view paper
  • Downloaded 650 times
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    • Site-wide: 13,060 out of 60,323
    • In bioinformatics: 2,127 out of 6,078
  • Year to date:
    • Site-wide: 2,771 out of 60,323
  • Since beginning of last month:
    • Site-wide: 2,477 out of 60,323

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

genomics more details view paper
  • Downloaded 632 times
  • Download rankings, all-time:
    • Site-wide: 13,555 out of 60,323
    • In genomics: 1,821 out of 4,181
  • Year to date:
    • Site-wide: 2,918 out of 60,323
  • Since beginning of last month:
    • Site-wide: 7,759 out of 60,323

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

genomics more details view paper
  • Downloaded 545 times
  • Download rankings, all-time:
    • Site-wide: 16,537 out of 60,323
    • In genomics: 2,080 out of 4,181
  • Year to date:
    • Site-wide: 50,798 out of 60,323
  • Since beginning of last month:
    • Site-wide: 55,103 out of 60,323

Haplotype-aware graph indexes

bioinformatics more details view paper
  • Downloaded 518 times
  • Download rankings, all-time:
    • Site-wide: 17,680 out of 60,323
    • In bioinformatics: 2,686 out of 6,078
  • Year to date:
    • Site-wide: 4,078 out of 60,323
  • Since beginning of last month:
    • Site-wide: 15,277 out of 60,323

Modelling haplotypes with respect to reference cohort variation graphs

genomics more details view paper
  • Downloaded 395 times
  • Download rankings, all-time:
    • Site-wide: 24,199 out of 60,323
    • In genomics: 2,601 out of 4,181
  • Year to date:
    • Site-wide: 51,818 out of 60,323
  • Since beginning of last month:
    • Site-wide: 43,646 out of 60,323

Describing the Local Structure of Sequence Graphs

bioinformatics more details view paper
  • Downloaded 378 times
  • Download rankings, all-time:
    • Site-wide: 25,364 out of 60,323
    • In bioinformatics: 3,497 out of 6,078
  • Year to date:
    • Site-wide: 57,653 out of 60,323
  • Since beginning of last month:
    • Site-wide: 56,971 out of 60,323

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

evolutionary biology more details view paper
  • Downloaded 307 times
  • Download rankings, all-time:
    • Site-wide: 31,001 out of 60,323
    • In evolutionary biology: 2,367 out of 4,111
  • Year to date:
    • Site-wide: 22,112 out of 60,323
  • Since beginning of last month:
    • Site-wide: 13,534 out of 60,323

ProTECT: Prediction of T-cell Epitopes for Cancer Therapy

bioinformatics more details view paper
  • Downloaded 300 times
  • Download rankings, all-time:
    • Site-wide: 31,658 out of 60,323
    • In bioinformatics: 4,065 out of 6,078
  • Year to date:
    • Site-wide: 10,072 out of 60,323
  • Since beginning of last month:
    • Site-wide: 18,178 out of 60,323

A Bayesian Framework for Detecting Gene Expression Outliers in Individual Samples

bioinformatics more details view paper
  • Downloaded 209 times
  • Download rankings, all-time:
    • Site-wide: 41,338 out of 60,323
    • In bioinformatics: 4,828 out of 6,078
  • Year to date:
    • Site-wide: 16,928 out of 60,323
  • Since beginning of last month:
    • Site-wide: 22,398 out of 60,323

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