Rxivist logo

Author: Michael Schatz

Rankings

  • All-time downloads: 110,109 (rank: 239 out of 361,504)
  • Categories:
    • biochemistry: 4,596 (rank: 189 (tie) out of 15,966)
    • bioinformatics: 93,318 (rank: 1 out of 31,246)
    • genomics: 12,076 (rank: 1,004 out of 39,075)
    • microbiology: 119 (rank: 36,499 (tie) out of 39,823)

Downloads per author, site-wide

Preprints

Third-generation sequencing and the future of genomics

bioinformatics more details view paper
  • Downloaded 31,222 times
  • Download rankings, all-time:
    • Site-wide: 36 out of 83,965
    • In bioinformatics: 4 out of 8,046
  • Year to date:
    • Site-wide: 369 out of 83,965
  • Since beginning of last month:
    • Site-wide: 543 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 9,868 times
  • Download rankings, all-time:
    • Site-wide: 222 out of 83,965
    • In bioinformatics: 26 out of 8,046
  • Year to date:
    • Site-wide: 43,827 out of 83,965
  • Since beginning of last month:
    • Site-wide: 39,426 out of 83,965

Phased Diploid Genome Assembly with Single Molecule Real-Time Sequencing

bioinformatics more details view paper
  • Downloaded 6,606 times
  • Download rankings, all-time:
    • Site-wide: 424 out of 83,965
    • In bioinformatics: 61 out of 8,046
  • Year to date:
    • Site-wide: 23,230 out of 83,965
  • Since beginning of last month:
    • Site-wide: 28,980 out of 83,965

Accurate detection of complex structural variations using single molecule sequencing

bioinformatics more details view paper
  • Downloaded 5,573 times
  • Download rankings, all-time:
    • Site-wide: 559 out of 83,965
    • In bioinformatics: 95 out of 8,046
  • Year to date:
    • Site-wide: 10,810 out of 83,965
  • Since beginning of last month:
    • Site-wide: 13,944 out of 83,965

REASSESSING THE REVOLUTIONS RESOLUTIONS

biochemistry more details view paper
  • Downloaded 4,596 times
  • Download rankings, all-time:
    • Site-wide: 800 out of 83,965
    • In biochemistry: 18 out of 2,723
  • Year to date:
    • Site-wide: 1,126 out of 83,965
  • Since beginning of last month:
    • Site-wide: 7,188 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 3,587 times
  • Download rankings, all-time:
    • Site-wide: 1,238 out of 83,965
    • In bioinformatics: 218 out of 8,046
  • Year to date:
    • Site-wide: 8,388 out of 83,965
  • Since beginning of last month:
    • Site-wide: 14,549 out of 83,965

Fast and accurate reference-guided scaffolding of draft genomes

bioinformatics more details view paper
  • Downloaded 3,082 times
  • Download rankings, all-time:
    • Site-wide: 1,590 out of 83,965
    • In bioinformatics: 288 out of 8,046
  • Year to date:
    • Site-wide: 5,694 out of 83,965
  • Since beginning of last month:
    • Site-wide: 9,354 out of 83,965

Ribbon: Visualizing complex genome alignments and structural variation

bioinformatics more details view paper
  • Downloaded 3,005 times
  • Download rankings, all-time:
    • Site-wide: 1,687 out of 83,965
    • In bioinformatics: 313 out of 8,046
  • Year to date:
    • Site-wide: 6,429 out of 83,965
  • Since beginning of last month:
    • Site-wide: 5,541 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 2,949 times
  • Download rankings, all-time:
    • Site-wide: 1,748 out of 83,965
    • In bioinformatics: 324 out of 8,046
  • Year to date:
    • Site-wide: 58,612 out of 83,965
  • Since beginning of last month:
    • Site-wide: 61,163 out of 83,965

The next 20 years of genome research

bioinformatics more details view paper
  • Downloaded 2,881 times
  • Download rankings, all-time:
    • Site-wide: 1,831 out of 83,965
    • In bioinformatics: 338 out of 8,046
  • Year to date:
    • Site-wide: 59,128 out of 83,965
  • Since beginning of last month:
    • Site-wide: 49,971 out of 83,965

Targeted nanopore sequencing by real-time mapping of raw electrical signal with UNCALLED

genomics more details view paper
  • Downloaded 2,676 times
  • Download rankings, all-time:
    • Site-wide: 2,061 out of 83,965
    • In genomics: 412 out of 5,420
  • Year to date:
    • Site-wide: 287 out of 83,965
  • Since beginning of last month:
    • Site-wide: 1,026 out of 83,965

SplitMEM: Graphical pan-genome analysis with suffix skips

bioinformatics more details view paper
  • Downloaded 2,401 times
  • Download rankings, all-time:
    • Site-wide: 2,490 out of 83,965
    • In bioinformatics: 471 out of 8,046
  • Year to date:
    • Site-wide: 76,790 out of 83,965
  • Since beginning of last month:
    • Site-wide: 71,770 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 2,391 times
  • Download rankings, all-time:
    • Site-wide: 2,515 out of 83,965
    • In bioinformatics: 475 out of 8,046
  • Year to date:
    • Site-wide: 59,556 out of 83,965
  • Since beginning of last month:
    • Site-wide: 64,662 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 2,279 times
  • Download rankings, all-time:
    • Site-wide: 2,718 out of 83,965
    • In bioinformatics: 503 out of 8,046
  • Year to date:
    • Site-wide: 66,486 out of 83,965
  • Since beginning of last month:
    • Site-wide: 69,119 out of 83,965

Addressing confounding artifacts in reconstruction of gene co-expression networks

genomics more details view paper
  • Downloaded 2,168 times
  • Download rankings, all-time:
    • Site-wide: 2,960 out of 83,965
    • In genomics: 567 out of 5,420
  • Year to date:
    • Site-wide: 29,329 out of 83,965
  • Since beginning of last month:
    • Site-wide: 22,696 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 1,808 times
  • Download rankings, all-time:
    • Site-wide: 3,987 out of 83,965
    • In bioinformatics: 747 out of 8,046
  • Year to date:
    • Site-wide: 2,047 out of 83,965
  • Since beginning of last month:
    • Site-wide: 4,250 out of 83,965

Metassembler: Merging and optimizing de novo genome assemblies

bioinformatics more details view paper
  • Downloaded 1,765 times
  • Download rankings, all-time:
    • Site-wide: 4,169 out of 83,965
    • In bioinformatics: 787 out of 8,046
  • Year to date:
    • Site-wide: 66,841 out of 83,965
  • Since beginning of last month:
    • Site-wide: 73,152 out of 83,965

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

genomics more details view paper
  • Downloaded 1,642 times
  • Download rankings, all-time:
    • Site-wide: 4,688 out of 83,965
    • In genomics: 799 out of 5,420
  • Year to date:
    • Site-wide: 10,004 out of 83,965
  • Since beginning of last month:
    • Site-wide: 20,665 out of 83,965

GenomeScope: Fast reference-free genome profiling from short reads

bioinformatics more details view paper
  • Downloaded 1,615 times
  • Download rankings, all-time:
    • Site-wide: 4,819 out of 83,965
    • In bioinformatics: 905 out of 8,046
  • Year to date:
    • Site-wide: 61,385 out of 83,965
  • Since beginning of last month:
    • Site-wide: 71,241 out of 83,965

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 1,602 times
  • Download rankings, all-time:
    • Site-wide: 4,895 out of 83,965
    • In genomics: 833 out of 5,420
  • Year to date:
    • Site-wide: 52,463 out of 83,965
  • Since beginning of last month:
    • Site-wide: 39,048 out of 83,965

The DOE Systems Biology Knowledgebase (KBase)

bioinformatics more details view paper
  • Downloaded 1,527 times
  • Download rankings, all-time:
    • Site-wide: 5,296 out of 83,965
    • In bioinformatics: 969 out of 8,046
  • Year to date:
    • Site-wide: 30,920 out of 83,965
  • Since beginning of last month:
    • Site-wide: 26,828 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 1,463 times
  • Download rankings, all-time:
    • Site-wide: 5,679 out of 83,965
    • In bioinformatics: 1,040 out of 8,046
  • Year to date:
    • Site-wide: 2,887 out of 83,965
  • Since beginning of last month:
    • Site-wide: 5,791 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 1,322 times
  • Download rankings, all-time:
    • Site-wide: 6,733 out of 83,965
    • In bioinformatics: 1,208 out of 8,046
  • Year to date:
    • Site-wide: 45,071 out of 83,965
  • Since beginning of last month:
    • Site-wide: 31,908 out of 83,965

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

genomics more details view paper
  • Downloaded 1,243 times
  • Download rankings, all-time:
    • Site-wide: 7,457 out of 83,965
    • In genomics: 1,160 out of 5,420
  • Year to date:
    • Site-wide: 49,508 out of 83,965
  • Since beginning of last month:
    • Site-wide: 43,786 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 1,191 times
  • Download rankings, all-time:
    • Site-wide: 7,992 out of 83,965
    • In bioinformatics: 1,375 out of 8,046
  • Year to date:
    • Site-wide: 78,035 out of 83,965
  • Since beginning of last month:
    • Site-wide: 80,338 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 1,140 times
  • Download rankings, all-time:
    • Site-wide: 8,614 out of 83,965
    • In bioinformatics: 1,455 out of 8,046
  • Year to date:
    • Site-wide: 28,094 out of 83,965
  • Since beginning of last month:
    • Site-wide: 23,695 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 1,087 times
  • Download rankings, all-time:
    • Site-wide: 9,301 out of 83,965
    • In bioinformatics: 1,560 out of 8,046
  • Year to date:
    • Site-wide: 75,219 out of 83,965
  • Since beginning of last month:
    • Site-wide: 58,373 out of 83,965

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

genomics more details view paper
  • Downloaded 1,076 times
  • Download rankings, all-time:
    • Site-wide: 9,452 out of 83,965
    • In genomics: 1,409 out of 5,420
  • Year to date:
    • Site-wide: 66,855 out of 83,965
  • Since beginning of last month:
    • Site-wide: 67,125 out of 83,965

SplitThreader: Exploration and analysis of rearrangements in cancer genomes

bioinformatics more details view paper
  • Downloaded 983 times
  • Download rankings, all-time:
    • Site-wide: 10,959 out of 83,965
    • In bioinformatics: 1,806 out of 8,046
  • Year to date:
    • Site-wide: 47,142 out of 83,965
  • Since beginning of last month:
    • Site-wide: 48,715 out of 83,965

Samovar: Single-sample mosaic SNV calling with linked reads

genomics more details view paper
  • Downloaded 946 times
  • Download rankings, all-time:
    • Site-wide: 11,655 out of 83,965
    • In genomics: 1,636 out of 5,420
  • Year to date:
    • Site-wide: 36,389 out of 83,965
  • Since beginning of last month:
    • Site-wide: 35,406 out of 83,965

iGenomics: Comprehensive DNA Sequence Analysis on your Smartphone

bioinformatics more details view paper
  • Downloaded 880 times
  • Download rankings, all-time:
    • Site-wide: 13,044 out of 83,965
    • In bioinformatics: 2,091 out of 8,046
  • Year to date:
    • Site-wide: 1,137 out of 83,965
  • Since beginning of last month:
    • Site-wide: 10,556 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 766 times
  • Download rankings, all-time:
    • Site-wide: 16,103 out of 83,965
    • In bioinformatics: 2,485 out of 8,046
  • Year to date:
    • Site-wide: 35,011 out of 83,965
  • Since beginning of last month:
    • Site-wide: 35,575 out of 83,965

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

genomics more details view paper
  • Downloaded 723 times
  • Download rankings, all-time:
    • Site-wide: 17,564 out of 83,965
    • In genomics: 2,162 out of 5,420
  • Year to date:
    • Site-wide: 11,090 out of 83,965
  • Since beginning of last month:
    • Site-wide: 16,267 out of 83,965

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

bioinformatics more details view paper
  • Downloaded 564 times
  • Download rankings, all-time:
    • Site-wide: 25,092 out of 83,965
    • In bioinformatics: 3,478 out of 8,046
  • Year to date:
    • Site-wide: 82,077 out of 83,965
  • Since beginning of last month:
    • Site-wide: 82,052 out of 83,965

Sapling: Accelerating Suffix Array Queries with Learned Data Models

bioinformatics more details view paper
  • Downloaded 474 times
  • Download rankings, all-time:
    • Site-wide: 31,066 out of 83,965
    • In bioinformatics: 4,039 out of 8,046
  • Year to date:
    • Site-wide: 2,867 out of 83,965
  • Since beginning of last month:
    • Site-wide: 18,965 out of 83,965

Vargas: heuristic-free alignment for assessing linear and graph read aligners

bioinformatics more details view paper
  • Downloaded 458 times
  • Download rankings, all-time:
    • Site-wide: 32,394 out of 83,965
    • In bioinformatics: 4,167 out of 8,046
  • Year to date:
    • Site-wide: 10,831 out of 83,965
  • Since beginning of last month:
    • Site-wide: 24,918 out of 83,965

Management, Analyses, and Distribution of the MaizeCODE Data on the Cloud

bioinformatics more details view paper
  • Downloaded 221 times
  • Download rankings, all-time:
    • Site-wide: 61,632 out of 83,965
    • In bioinformatics: 6,502 out of 8,046
  • Year to date:
    • Site-wide: 24,710 out of 83,965
  • Since beginning of last month:
    • Site-wide: 39,815 out of 83,965

Recovering rearranged cancer chromosomes from karyotype graphs

bioinformatics more details view paper
  • Downloaded 210 times
  • Download rankings, all-time:
    • Site-wide: 63,473 out of 83,965
    • In bioinformatics: 6,635 out of 8,046
  • Year to date:
    • Site-wide: 70,440 out of 83,965
  • Since beginning of last month:
    • Site-wide: 75,207 out of 83,965

A plasmid locus associated with Klebsiella clinical infections encodes a microbiome-dependent gut fitness factor

microbiology more details view paper
  • Downloaded 119 times
  • Download rankings, all-time:
    • Site-wide: 77,054 out of 83,965
    • In microbiology: 6,288 out of 7,145
  • Year to date:
    • Site-wide: 22,696 out of 83,965
  • Since beginning of last month:
    • Site-wide: 40,533 out of 83,965

PanLingua

Sign up for the Rxivist weekly newsletter! (Click here for more details.)


News