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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 62,933 bioRxiv papers from 279,142 authors.

Author: Michael C. Schatz

Rankings

  • All-time downloads: 103,755 (rank: 60 out of 279,142)
  • Categories:
    • bioinformatics: 83,827 (rank: 2 out of 24,417)
    • genomics: 19,928 (rank: 323 out of 31,956)

Downloads per author, site-wide

Preprints

Third-generation sequencing and the future of genomics

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  • Downloaded 28,024 times
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    • Site-wide: 15 out of 62,933
    • In bioinformatics: 2 out of 6,251
  • Year to date:
    • Site-wide: 89 out of 62,933
  • Since beginning of last month:
    • Site-wide: 251 out of 62,933

Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome

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  • Downloaded 9,745 times
  • Download rankings, all-time:
    • Site-wide: 111 out of 62,933
    • In bioinformatics: 21 out of 6,251
  • Year to date:
    • Site-wide: 12,501 out of 62,933
  • Since beginning of last month:
    • Site-wide: 27,738 out of 62,933

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

genomics more details view paper
  • Downloaded 9,587 times
  • Download rankings, all-time:
    • Site-wide: 117 out of 62,933
    • In genomics: 39 out of 4,316
  • Year to date:
    • Site-wide: 17 out of 62,933
  • Since beginning of last month:
    • Site-wide: 143 out of 62,933

Phased Diploid Genome Assembly with Single Molecule Real-Time Sequencing

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  • Downloaded 6,406 times
  • Download rankings, all-time:
    • Site-wide: 259 out of 62,933
    • In bioinformatics: 45 out of 6,251
  • Year to date:
    • Site-wide: 9,020 out of 62,933
  • Since beginning of last month:
    • Site-wide: 22,517 out of 62,933

Accurate detection of complex structural variations using single molecule sequencing

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  • Downloaded 5,223 times
  • Download rankings, all-time:
    • Site-wide: 377 out of 62,933
    • In bioinformatics: 73 out of 6,251
  • Year to date:
    • Site-wide: 1,966 out of 62,933
  • Since beginning of last month:
    • Site-wide: 4,606 out of 62,933

Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing

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  • Downloaded 3,199 times
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    • Site-wide: 954 out of 62,933
    • In bioinformatics: 193 out of 6,251
  • Year to date:
    • Site-wide: 1,207 out of 62,933
  • Since beginning of last month:
    • Site-wide: 2,699 out of 62,933

Accurate detection of de novo and transmitted INDELs within exome-capture data using micro-assembly

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  • Downloaded 2,874 times
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    • Site-wide: 1,177 out of 62,933
    • In bioinformatics: 241 out of 6,251
  • Year to date:
    • Site-wide: 39,007 out of 62,933
  • Since beginning of last month:
    • Site-wide: 46,290 out of 62,933

The next 20 years of genome research

bioinformatics more details view paper
  • Downloaded 2,808 times
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    • Site-wide: 1,233 out of 62,933
    • In bioinformatics: 252 out of 6,251
  • Year to date:
    • Site-wide: 50,738 out of 62,933
  • Since beginning of last month:
    • Site-wide: 59,190 out of 62,933

Ribbon: Visualizing complex genome alignments and structural variation

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  • Downloaded 2,547 times
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    • Site-wide: 1,437 out of 62,933
    • In bioinformatics: 285 out of 6,251
  • Year to date:
    • Site-wide: 4,593 out of 62,933
  • Since beginning of last month:
    • Site-wide: 10,074 out of 62,933

A robust benchmark for germline structural variant detection

genomics more details view paper
  • Downloaded 2,363 times
  • Download rankings, all-time:
    • Site-wide: 1,660 out of 62,933
    • In genomics: 368 out of 4,316
  • Year to date:
    • Site-wide: 276 out of 62,933
  • Since beginning of last month:
    • Site-wide: 325 out of 62,933

Fast and accurate reference-guided scaffolding of draft genomes

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  • Downloaded 2,363 times
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    • Site-wide: 1,659 out of 62,933
    • In bioinformatics: 334 out of 6,251
  • Year to date:
    • Site-wide: 275 out of 62,933
  • Since beginning of last month:
    • Site-wide: 518 out of 62,933

SplitMEM: Graphical pan-genome analysis with suffix skips

bioinformatics more details view paper
  • Downloaded 2,336 times
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    • Site-wide: 1,689 out of 62,933
    • In bioinformatics: 340 out of 6,251
  • Year to date:
    • Site-wide: 53,345 out of 62,933
  • Since beginning of last month:
    • Site-wide: 49,355 out of 62,933

Reducing INDEL calling errors in whole-genome and exome sequencing data

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  • Downloaded 2,316 times
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    • Site-wide: 1,722 out of 62,933
    • In bioinformatics: 350 out of 6,251
  • Year to date:
    • Site-wide: 46,507 out of 62,933
  • Since beginning of last month:
    • Site-wide: 50,807 out of 62,933

Interactive analysis and quality assessment of single-cell copy-number variations

bioinformatics more details view paper
  • Downloaded 2,216 times
  • Download rankings, all-time:
    • Site-wide: 1,855 out of 62,933
    • In bioinformatics: 378 out of 6,251
  • Year to date:
    • Site-wide: 49,007 out of 62,933
  • Since beginning of last month:
    • Site-wide: 43,668 out of 62,933

Indel variant analysis of short-read sequencing data with Scalpel

bioinformatics more details view paper
  • Downloaded 2,031 times
  • Download rankings, all-time:
    • Site-wide: 2,183 out of 62,933
    • In bioinformatics: 450 out of 6,251
  • Year to date:
    • Site-wide: 35,575 out of 62,933
  • Since beginning of last month:
    • Site-wide: 21,704 out of 62,933

Addressing confounding artifacts in reconstruction of gene co-expression networks

genomics more details view paper
  • Downloaded 2,026 times
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    • Site-wide: 2,193 out of 62,933
    • In genomics: 464 out of 4,316
  • Year to date:
    • Site-wide: 4,281 out of 62,933
  • Since beginning of last month:
    • Site-wide: 14,195 out of 62,933

Metassembler: Merging and optimizing de novo genome assemblies

bioinformatics more details view paper
  • Downloaded 1,699 times
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    • Site-wide: 2,959 out of 62,933
    • In bioinformatics: 596 out of 6,251
  • Year to date:
    • Site-wide: 44,241 out of 62,933
  • Since beginning of last month:
    • Site-wide: 38,638 out of 62,933

GenomeScope: Fast reference-free genome profiling from short reads

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  • Downloaded 1,544 times
  • Download rankings, all-time:
    • Site-wide: 3,471 out of 62,933
    • In bioinformatics: 704 out of 6,251
  • Year to date:
    • Site-wide: 30,815 out of 62,933
  • Since beginning of last month:
    • Site-wide: 52,646 out of 62,933

Complex rearrangements and oncogene amplifications revealed by long-read DNA and RNA sequencing of a breast cancer cell line

genomics more details view paper
  • Downloaded 1,437 times
  • Download rankings, all-time:
    • Site-wide: 3,914 out of 62,933
    • In genomics: 725 out of 4,316
  • Year to date:
    • Site-wide: 26,592 out of 62,933
  • Since beginning of last month:
    • Site-wide: 21,841 out of 62,933

The DOE Systems Biology Knowledgebase (KBase)

bioinformatics more details view paper
  • Downloaded 1,393 times
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    • Site-wide: 4,117 out of 62,933
    • In bioinformatics: 819 out of 6,251
  • Year to date:
    • Site-wide: 18,597 out of 62,933
  • Since beginning of last month:
    • Site-wide: 31,112 out of 62,933

Scikit-ribo: Accurate estimation and robust modeling of translation dynamics at codon resolution

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  • Downloaded 1,215 times
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    • Site-wide: 5,133 out of 62,933
    • In bioinformatics: 999 out of 6,251
  • Year to date:
    • Site-wide: 25,416 out of 62,933
  • Since beginning of last month:
    • Site-wide: 35,276 out of 62,933

Assemblytics: a web analytics tool for the detection of assembly-based variants

genomics more details view paper
  • Downloaded 1,149 times
  • Download rankings, all-time:
    • Site-wide: 5,658 out of 62,933
    • In genomics: 955 out of 4,316
  • Year to date:
    • Site-wide: 46,191 out of 62,933
  • Since beginning of last month:
    • Site-wide: 46,327 out of 62,933

LRSim: a Linked Reads Simulator generating insights for better genome partitioning

bioinformatics more details view paper
  • Downloaded 1,147 times
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    • Site-wide: 5,672 out of 62,933
    • In bioinformatics: 1,086 out of 6,251
  • Year to date:
    • Site-wide: 54,792 out of 62,933
  • Since beginning of last month:
    • Site-wide: 48,957 out of 62,933

Paragraph: A graph-based structural variant genotyper for short-read sequence data

genomics more details view paper
  • Downloaded 1,113 times
  • Download rankings, all-time:
    • Site-wide: 5,963 out of 62,933
    • In genomics: 991 out of 4,316
  • Year to date:
    • Site-wide: 1,230 out of 62,933
  • Since beginning of last month:
    • Site-wide: 1,018 out of 62,933

16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model

bioinformatics more details view paper
  • Downloaded 1,031 times
  • Download rankings, all-time:
    • Site-wide: 6,757 out of 62,933
    • In bioinformatics: 1,234 out of 6,251
  • Year to date:
    • Site-wide: 50,311 out of 62,933
  • Since beginning of last month:
    • Site-wide: 51,505 out of 62,933

Reference Quality Assembly of the 3.5 Gb genome of Capsicum annuum from a Single Linked-Read Library

genomics more details view paper
  • Downloaded 1,005 times
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    • Site-wide: 7,023 out of 62,933
    • In genomics: 1,131 out of 4,316
  • Year to date:
    • Site-wide: 46,670 out of 62,933
  • Since beginning of last month:
    • Site-wide: 60,465 out of 62,933

Skyhawk: An Artificial Neural Network-based discriminator for reviewing clinically significant genomic variants

bioinformatics more details view paper
  • Downloaded 995 times
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    • Site-wide: 7,146 out of 62,933
    • In bioinformatics: 1,296 out of 6,251
  • Year to date:
    • Site-wide: 5,080 out of 62,933
  • Since beginning of last month:
    • Site-wide: 10,926 out of 62,933

SplitThreader: Exploration and analysis of rearrangements in cancer genomes

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  • Downloaded 894 times
  • Download rankings, all-time:
    • Site-wide: 8,490 out of 62,933
    • In bioinformatics: 1,494 out of 6,251
  • Year to date:
    • Site-wide: 30,871 out of 62,933
  • Since beginning of last month:
    • Site-wide: 40,548 out of 62,933

Samovar: Single-sample mosaic SNV calling with linked reads

genomics more details view paper
  • Downloaded 809 times
  • Download rankings, all-time:
    • Site-wide: 9,899 out of 62,933
    • In genomics: 1,461 out of 4,316
  • Year to date:
    • Site-wide: 2,140 out of 62,933
  • Since beginning of last month:
    • Site-wide: 11,195 out of 62,933

GenomeScope 2.0 and Smudgeplots: Reference-free profiling of polyploid genomes

bioinformatics more details view paper
  • Downloaded 686 times
  • Download rankings, all-time:
    • Site-wide: 12,583 out of 62,933
    • In bioinformatics: 2,070 out of 6,251
  • Year to date:
    • Site-wide: 2,853 out of 62,933
  • Since beginning of last month:
    • Site-wide: 985 out of 62,933

SVCollector: Optimized sample selection for validating and long-read resequencing of structural variants

bioinformatics more details view paper
  • Downloaded 605 times
  • Download rankings, all-time:
    • Site-wide: 14,975 out of 62,933
    • In bioinformatics: 2,377 out of 6,251
  • Year to date:
    • Site-wide: 8,096 out of 62,933
  • Since beginning of last month:
    • Site-wide: 16,824 out of 62,933

Teaser: Individualized benchmarking and optimization of read mapping results for NGS data

bioinformatics more details view paper
  • Downloaded 530 times
  • Download rankings, all-time:
    • Site-wide: 17,834 out of 62,933
    • In bioinformatics: 2,695 out of 6,251
  • Year to date:
    • Site-wide: 57,213 out of 62,933
  • Since beginning of last month:
    • Site-wide: 49,989 out of 62,933

First near complete haplotype phased genome assembly of River buffalo (Bubalus bubalis)

genomics more details view paper
  • Downloaded 439 times
  • Download rankings, all-time:
    • Site-wide: 22,444 out of 62,933
    • In genomics: 2,482 out of 4,316
  • Year to date:
    • Site-wide: 6,087 out of 62,933
  • Since beginning of last month:
    • Site-wide: 8,291 out of 62,933

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