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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 67,354 bioRxiv papers from 296,559 authors.

Author: Michael C. Schatz

Rankings

  • All-time downloads: 108,680 (rank: 59 out of 296,777)
  • Categories:
    • bioinformatics: 87,068 (rank: 2 out of 25,871)
    • genomics: 21,612 (rank: 305 out of 33,723)

Downloads per author, site-wide

Preprints

Third-generation sequencing and the future of genomics

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  • Downloaded 28,827 times
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    • Site-wide: 15 out of 67,354
    • In bioinformatics: 2 out of 6,638
  • Year to date:
    • Site-wide: 89 out of 67,354
  • Since beginning of last month:
    • Site-wide: 251 out of 67,354

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

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  • Downloaded 10,156 times
  • Download rankings, all-time:
    • Site-wide: 111 out of 67,354
    • In genomics: 35 out of 4,574
  • Year to date:
    • Site-wide: 21 out of 67,354
  • Since beginning of last month:
    • Site-wide: 532 out of 67,354

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

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  • Downloaded 9,770 times
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    • Site-wide: 126 out of 67,354
    • In bioinformatics: 22 out of 6,638
  • Year to date:
    • Site-wide: 14,363 out of 67,354
  • Since beginning of last month:
    • Site-wide: 32,783 out of 67,354

Phased Diploid Genome Assembly with Single Molecule Real-Time Sequencing

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  • Downloaded 6,468 times
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    • Site-wide: 277 out of 67,354
    • In bioinformatics: 45 out of 6,638
  • Year to date:
    • Site-wide: 9,116 out of 67,354
  • Since beginning of last month:
    • Site-wide: 14,616 out of 67,354

Accurate detection of complex structural variations using single molecule sequencing

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  • Downloaded 5,329 times
  • Download rankings, all-time:
    • Site-wide: 394 out of 67,354
    • In bioinformatics: 76 out of 6,638
  • Year to date:
    • Site-wide: 2,122 out of 67,354
  • Since beginning of last month:
    • Site-wide: 7,818 out of 67,354

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

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  • Downloaded 3,289 times
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    • Site-wide: 990 out of 67,354
    • In bioinformatics: 198 out of 6,638
  • Year to date:
    • Site-wide: 1,398 out of 67,354
  • Since beginning of last month:
    • Site-wide: 7,838 out of 67,354

A robust benchmark for germline structural variant detection

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  • Downloaded 2,957 times
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    • Site-wide: 1,217 out of 67,354
    • In genomics: 282 out of 4,574
  • Year to date:
    • Site-wide: 245 out of 67,354
  • Since beginning of last month:
    • Site-wide: 412 out of 67,354

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

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  • Downloaded 2,885 times
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    • Site-wide: 1,276 out of 67,354
    • In bioinformatics: 255 out of 6,638
  • Year to date:
    • Site-wide: 44,070 out of 67,354
  • Since beginning of last month:
    • Site-wide: 64,239 out of 67,354

The next 20 years of genome research

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  • Downloaded 2,819 times
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    • Site-wide: 1,331 out of 67,354
    • In bioinformatics: 266 out of 6,638
  • Year to date:
    • Site-wide: 55,941 out of 67,354
  • Since beginning of last month:
    • Site-wide: 63,377 out of 67,354

Fast and accurate reference-guided scaffolding of draft genomes

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  • Downloaded 2,718 times
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    • Site-wide: 1,412 out of 67,354
    • In bioinformatics: 276 out of 6,638
  • Year to date:
    • Site-wide: 290 out of 67,354
  • Since beginning of last month:
    • Site-wide: 1,378 out of 67,354

Ribbon: Visualizing complex genome alignments and structural variation

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  • Downloaded 2,666 times
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    • Site-wide: 1,457 out of 67,354
    • In bioinformatics: 286 out of 6,638
  • Year to date:
    • Site-wide: 4,283 out of 67,354
  • Since beginning of last month:
    • Site-wide: 4,562 out of 67,354

SplitMEM: Graphical pan-genome analysis with suffix skips

bioinformatics more details view paper
  • Downloaded 2,361 times
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    • Site-wide: 1,823 out of 67,354
    • In bioinformatics: 362 out of 6,638
  • Year to date:
    • Site-wide: 52,918 out of 67,354
  • Since beginning of last month:
    • Site-wide: 26,926 out of 67,354

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

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  • Downloaded 2,335 times
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    • Site-wide: 1,865 out of 67,354
    • In bioinformatics: 374 out of 6,638
  • Year to date:
    • Site-wide: 48,949 out of 67,354
  • Since beginning of last month:
    • Site-wide: 28,780 out of 67,354

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

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  • Downloaded 2,223 times
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    • Site-wide: 2,031 out of 67,354
    • In bioinformatics: 414 out of 6,638
  • Year to date:
    • Site-wide: 55,425 out of 67,354
  • Since beginning of last month:
    • Site-wide: 60,151 out of 67,354

Indel variant analysis of short-read sequencing data with Scalpel

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  • Downloaded 2,072 times
  • Download rankings, all-time:
    • Site-wide: 2,298 out of 67,354
    • In bioinformatics: 470 out of 6,638
  • Year to date:
    • Site-wide: 33,310 out of 67,354
  • Since beginning of last month:
    • Site-wide: 22,534 out of 67,354

Addressing confounding artifacts in reconstruction of gene co-expression networks

genomics more details view paper
  • Downloaded 2,050 times
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    • Site-wide: 2,342 out of 67,354
    • In genomics: 489 out of 4,574
  • Year to date:
    • Site-wide: 5,282 out of 67,354
  • Since beginning of last month:
    • Site-wide: 47,933 out of 67,354

Metassembler: Merging and optimizing de novo genome assemblies

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  • Downloaded 1,707 times
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    • Site-wide: 3,194 out of 67,354
    • In bioinformatics: 636 out of 6,638
  • Year to date:
    • Site-wide: 50,705 out of 67,354
  • Since beginning of last month:
    • Site-wide: 52,343 out of 67,354

GenomeScope: Fast reference-free genome profiling from short reads

bioinformatics more details view paper
  • Downloaded 1,561 times
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    • Site-wide: 3,712 out of 67,354
    • In bioinformatics: 742 out of 6,638
  • Year to date:
    • Site-wide: 34,160 out of 67,354
  • Since beginning of last month:
    • Site-wide: 57,282 out of 67,354

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 1,539 times
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    • Site-wide: 3,804 out of 67,354
    • In genomics: 704 out of 4,574
  • Year to date:
    • Site-wide: 18,215 out of 67,354
  • Since beginning of last month:
    • Site-wide: 3,484 out of 67,354

The DOE Systems Biology Knowledgebase (KBase)

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  • Downloaded 1,418 times
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    • Site-wide: 4,375 out of 67,354
    • In bioinformatics: 855 out of 6,638
  • Year to date:
    • Site-wide: 20,690 out of 67,354
  • Since beginning of last month:
    • Site-wide: 44,721 out of 67,354

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

genomics more details view paper
  • Downloaded 1,369 times
  • Download rankings, all-time:
    • Site-wide: 4,647 out of 67,354
    • In genomics: 827 out of 4,574
  • Year to date:
    • Site-wide: 1,130 out of 67,354
  • Since beginning of last month:
    • Site-wide: 2,665 out of 67,354

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

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  • Downloaded 1,248 times
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    • Site-wide: 5,398 out of 67,354
    • In bioinformatics: 1,033 out of 6,638
  • Year to date:
    • Site-wide: 26,113 out of 67,354
  • Since beginning of last month:
    • Site-wide: 31,468 out of 67,354

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

genomics more details view paper
  • Downloaded 1,174 times
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    • Site-wide: 5,997 out of 67,354
    • In genomics: 1,004 out of 4,574
  • Year to date:
    • Site-wide: 46,708 out of 67,354
  • Since beginning of last month:
    • Site-wide: 33,240 out of 67,354

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

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  • Downloaded 1,155 times
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    • Site-wide: 6,165 out of 67,354
    • In bioinformatics: 1,158 out of 6,638
  • Year to date:
    • Site-wide: 60,404 out of 67,354
  • Since beginning of last month:
    • Site-wide: 61,069 out of 67,354

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

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  • Downloaded 1,046 times
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    • Site-wide: 7,235 out of 67,354
    • In bioinformatics: 1,290 out of 6,638
  • Year to date:
    • Site-wide: 53,843 out of 67,354
  • Since beginning of last month:
    • Site-wide: 53,477 out of 67,354

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

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    • Site-wide: 7,388 out of 67,354
    • In bioinformatics: 1,314 out of 6,638
  • Year to date:
    • Site-wide: 5,959 out of 67,354
  • Since beginning of last month:
    • Site-wide: 21,519 out of 67,354

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

genomics more details view paper
  • Downloaded 1,028 times
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    • Site-wide: 7,419 out of 67,354
    • In genomics: 1,189 out of 4,574
  • Year to date:
    • Site-wide: 47,807 out of 67,354
  • Since beginning of last month:
    • Site-wide: 54,108 out of 67,354

Comprehensive analysis of structural variants in breast cancer genomes using single molecule sequencing

bioinformatics more details view paper
  • Downloaded 960 times
  • Download rankings, all-time:
    • Site-wide: 8,316 out of 67,354
    • In bioinformatics: 1,454 out of 6,638
  • Year to date:
    • Site-wide: 2,112 out of 67,354
  • Since beginning of last month:
    • Site-wide: 70 out of 67,354

SplitThreader: Exploration and analysis of rearrangements in cancer genomes

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  • Downloaded 915 times
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    • Site-wide: 8,977 out of 67,354
    • In bioinformatics: 1,561 out of 6,638
  • Year to date:
    • Site-wide: 33,416 out of 67,354
  • Since beginning of last month:
    • Site-wide: 33,846 out of 67,354

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

bioinformatics more details view paper
  • Downloaded 895 times
  • Download rankings, all-time:
    • Site-wide: 9,280 out of 67,354
    • In bioinformatics: 1,611 out of 6,638
  • Year to date:
    • Site-wide: 2,390 out of 67,354
  • Since beginning of last month:
    • Site-wide: 3,087 out of 67,354

Samovar: Single-sample mosaic SNV calling with linked reads

genomics more details view paper
  • Downloaded 847 times
  • Download rankings, all-time:
    • Site-wide: 10,108 out of 67,354
    • In genomics: 1,490 out of 4,574
  • Year to date:
    • Site-wide: 2,604 out of 67,354
  • Since beginning of last month:
    • Site-wide: 31,124 out of 67,354

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

bioinformatics more details view paper
  • Downloaded 664 times
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    • Site-wide: 14,463 out of 67,354
    • In bioinformatics: 2,302 out of 6,638
  • Year to date:
    • Site-wide: 8,406 out of 67,354
  • Since beginning of last month:
    • Site-wide: 11,697 out of 67,354

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

bioinformatics more details view paper
  • Downloaded 541 times
  • Download rankings, all-time:
    • Site-wide: 19,186 out of 67,354
    • In bioinformatics: 2,866 out of 6,638
  • Year to date:
    • Site-wide: 61,484 out of 67,354
  • Since beginning of last month:
    • Site-wide: 50,242 out of 67,354

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

genomics more details view paper
  • Downloaded 492 times
  • Download rankings, all-time:
    • Site-wide: 21,615 out of 67,354
    • In genomics: 2,445 out of 4,574
  • Year to date:
    • Site-wide: 6,698 out of 67,354
  • Since beginning of last month:
    • Site-wide: 12,142 out of 67,354

Recovering rearranged cancer chromosomes from karyotype graphs

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  • Downloaded 164 times
  • Download rankings, all-time:
    • Site-wide: 53,712 out of 67,354
    • In bioinformatics: 5,776 out of 6,638
  • Year to date:
    • Site-wide: 32,090 out of 67,354
  • Since beginning of last month:
    • Site-wide: 1,339 out of 67,354

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