Rxivist logo

Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 52,258 bioRxiv papers from 242,323 authors.

Author: Adam M Phillippy

Rankings

  • All-time downloads: 78,814 (rank: 80 out of 242,323)
  • Categories:
    • bioinformatics: 45,994 (rank: 40 out of 21,394)
    • genetics: 315 (rank: 16,257 (tie) out of 23,571)
    • genomics: 31,631 (rank: 166 out of 28,035)
    • microbiology: 874 (rank: 3,069 (tie) out of 23,392)

Downloads per author, site-wide

Preprints

An improved pig reference genome sequence to enable pig genetics and genomics research

genomics more details view paper

No bioRxiv download data for this paper yet.

A robust benchmark for germline structural variant detection

genomics more details view paper

No bioRxiv download data for this paper yet.

Nanopore sequencing and assembly of a human genome with ultra-long reads

genomics more details view paper
  • Downloaded 12,740 times
  • Download rankings, all-time:
    • Site-wide: 55 out of 52,258
    • In genomics: 17 out of 3,742
  • Year to date:
    • Site-wide: 3,225 out of 52,258
  • Since beginning of last month:
    • Site-wide: 4,117 out of 52,258

Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing

bioinformatics more details view paper
  • Downloaded 10,489 times
  • Download rankings, all-time:
    • Site-wide: 78 out of 52,258
    • In bioinformatics: 14 out of 5,476
  • Year to date:
    • Site-wide: 4,165 out of 52,258
  • Since beginning of last month:
    • Site-wide: 6,193 out of 52,258

Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation

bioinformatics more details view paper
  • Downloaded 7,394 times
  • Download rankings, all-time:
    • Site-wide: 152 out of 52,258
    • In bioinformatics: 27 out of 5,476
  • Year to date:
    • Site-wide: 4,510 out of 52,258
  • Since beginning of last month:
    • Site-wide: 6,010 out of 52,258

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

genomics more details view paper
  • Downloaded 7,386 times
  • Download rankings, all-time:
    • Site-wide: 153 out of 52,258
    • In genomics: 49 out of 3,742
  • Year to date:
    • Site-wide: 14 out of 52,258
  • Since beginning of last month:
    • Site-wide: 44 out of 52,258

Mash: fast genome and metagenome distance estimation using MinHash

bioinformatics more details view paper
  • Downloaded 6,226 times
  • Download rankings, all-time:
    • Site-wide: 213 out of 52,258
    • In bioinformatics: 39 out of 5,476
  • Year to date:
    • Site-wide: 16,940 out of 52,258
  • Since beginning of last month:
    • Site-wide: 19,013 out of 52,258

Integrating Hi-C links with assembly graphs for chromosome-scale assembly

bioinformatics more details view paper
  • Downloaded 5,266 times
  • Download rankings, all-time:
    • Site-wide: 301 out of 52,258
    • In bioinformatics: 60 out of 5,476
  • Year to date:
    • Site-wide: 226 out of 52,258
  • Since beginning of last month:
    • Site-wide: 427 out of 52,258

A fast approximate algorithm for mapping long reads to large reference databases

bioinformatics more details view paper
  • Downloaded 3,474 times
  • Download rankings, all-time:
    • Site-wide: 673 out of 52,258
    • In bioinformatics: 133 out of 5,476
  • Year to date:
    • Site-wide: 5,024 out of 52,258
  • Since beginning of last month:
    • Site-wide: 4,436 out of 52,258

Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes

genomics more details view paper
  • Downloaded 2,997 times
  • Download rankings, all-time:
    • Site-wide: 894 out of 52,258
    • In genomics: 230 out of 3,742
  • Year to date:
    • Site-wide: 20,766 out of 52,258
  • Since beginning of last month:
    • Site-wide: 22,294 out of 52,258

Improved Aedes aegypti mosquito reference genome assembly enables biological discovery and vector control

genomics more details view paper
  • Downloaded 2,850 times
  • Download rankings, all-time:
    • Site-wide: 975 out of 52,258
    • In genomics: 245 out of 3,742
  • Year to date:
    • Site-wide: 3,990 out of 52,258
  • Since beginning of last month:
    • Site-wide: 7,196 out of 52,258

Rapid Core-Genome Alignment and Visualization for Thousands of Intraspecific Microbial Genomes

bioinformatics more details view paper
  • Downloaded 2,768 times
  • Download rankings, all-time:
    • Site-wide: 1,036 out of 52,258
    • In bioinformatics: 220 out of 5,476
  • Year to date:
    • Site-wide: 15,371 out of 52,258
  • Since beginning of last month:
    • Site-wide: 22,480 out of 52,258

High-throughput ANI Analysis of 90K Prokaryotic Genomes Reveals Clear Species Boundaries

bioinformatics more details view paper
  • Downloaded 2,716 times
  • Download rankings, all-time:
    • Site-wide: 1,066 out of 52,258
    • In bioinformatics: 228 out of 5,476
  • Year to date:
    • Site-wide: 6,022 out of 52,258
  • Since beginning of last month:
    • Site-wide: 9,651 out of 52,258

Automated ensemble assembly and validation of microbial genomes

bioinformatics more details view paper
  • Downloaded 1,884 times
  • Download rankings, all-time:
    • Site-wide: 2,040 out of 52,258
    • In bioinformatics: 428 out of 5,476
  • Year to date:
    • Site-wide: 48,522 out of 52,258
  • Since beginning of last month:
    • Site-wide: 45,583 out of 52,258

Long-read, whole genome shotgun sequence data for five model organisms

genomics more details view paper
  • Downloaded 1,755 times
  • Download rankings, all-time:
    • Site-wide: 2,288 out of 52,258
    • In genomics: 489 out of 3,742
  • Year to date:
    • Site-wide: 27,607 out of 52,258
  • Since beginning of last month:
    • Site-wide: 36,204 out of 52,258

A Fast Adaptive Algorithm for Computing Whole-Genome Homology Maps

bioinformatics more details view paper
  • Downloaded 1,701 times
  • Download rankings, all-time:
    • Site-wide: 2,419 out of 52,258
    • In bioinformatics: 504 out of 5,476
  • Year to date:
    • Site-wide: 6,821 out of 52,258
  • Since beginning of last month:
    • Site-wide: 9,723 out of 52,258

De Novo assembly of the goldfish (Carassius auratus) genome and the evolution of genes after whole genome duplication

genomics more details view paper
  • Downloaded 1,541 times
  • Download rankings, all-time:
    • Site-wide: 2,852 out of 52,258
    • In genomics: 573 out of 3,742
  • Year to date:
    • Site-wide: 3,049 out of 52,258
  • Since beginning of last month:
    • Site-wide: 3,583 out of 52,258

RefSeq database growth influences the accuracy of k-mer-based species identification

bioinformatics more details view paper
  • Downloaded 1,227 times
  • Download rankings, all-time:
    • Site-wide: 4,111 out of 52,258
    • In bioinformatics: 830 out of 5,476
  • Year to date:
    • Site-wide: 20,702 out of 52,258
  • Since beginning of last month:
    • Site-wide: 17,866 out of 52,258

MetaMaps - Strain-level metagenomic assignment and compositional estimation for long reads

bioinformatics more details view paper
  • Downloaded 1,155 times
  • Download rankings, all-time:
    • Site-wide: 4,534 out of 52,258
    • In bioinformatics: 912 out of 5,476
  • Year to date:
    • Site-wide: 7,378 out of 52,258
  • Since beginning of last month:
    • Site-wide: 9,686 out of 52,258

Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

genomics more details view paper
  • Downloaded 1,083 times
  • Download rankings, all-time:
    • Site-wide: 5,028 out of 52,258
    • In genomics: 874 out of 3,742
  • Year to date:
    • Site-wide: 28,484 out of 52,258
  • Since beginning of last month:
    • Site-wide: 26,384 out of 52,258

Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation

microbiology more details view paper
  • Downloaded 874 times
  • Download rankings, all-time:
    • Site-wide: 7,082 out of 52,258
    • In microbiology: 294 out of 4,088
  • Year to date:
    • Site-wide: 2,319 out of 52,258
  • Since beginning of last month:
    • Site-wide: 3,314 out of 52,258

Mash Screen: High-throughput sequence containment estimation for genome discovery

bioinformatics more details view paper
  • Downloaded 799 times
  • Download rankings, all-time:
    • Site-wide: 8,124 out of 52,258
    • In bioinformatics: 1,461 out of 5,476
  • Year to date:
    • Site-wide: 974 out of 52,258
  • Since beginning of last month:
    • Site-wide: 1,306 out of 52,258

Analysis of the Aedes albopictus C6/36 genome provides insight into cell line adaptations to in vitro viral propagation

genomics more details view paper
  • Downloaded 693 times
  • Download rankings, all-time:
    • Site-wide: 9,998 out of 52,258
    • In genomics: 1,465 out of 3,742
  • Year to date:
    • Site-wide: 40,926 out of 52,258
  • Since beginning of last month:
    • Site-wide: 33,875 out of 52,258

Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies

genomics more details view paper
  • Downloaded 586 times
  • Download rankings, all-time:
    • Site-wide: 12,517 out of 52,258
    • In genomics: 1,706 out of 3,742
  • Year to date:
    • Site-wide: 5,863 out of 52,258
  • Since beginning of last month:
    • Site-wide: 9,469 out of 52,258

HLA*PRG:LA - HLA typing from linearly projected graph alignments

bioinformatics more details view paper
  • Downloaded 496 times
  • Download rankings, all-time:
    • Site-wide: 15,521 out of 52,258
    • In bioinformatics: 2,436 out of 5,476
  • Year to date:
    • Site-wide: 9,916 out of 52,258
  • Since beginning of last month:
    • Site-wide: 18,766 out of 52,258

A chromosome-scale assembly of the major African malaria vector Anopheles funestus

bioinformatics more details view paper
  • Downloaded 399 times
  • Download rankings, all-time:
    • Site-wide: 19,843 out of 52,258
    • In bioinformatics: 2,915 out of 5,476
  • Year to date:
    • Site-wide: 6,734 out of 52,258
  • Since beginning of last month:
    • Site-wide: 6,187 out of 52,258

The evolution of the natural killer complex; a comparison between mammals using new high-quality genome assemblies and targeted annotation

genetics more details view paper
  • Downloaded 315 times
  • Download rankings, all-time:
    • Site-wide: 25,002 out of 52,258
    • In genetics: 1,674 out of 3,048
  • Year to date:
    • Site-wide: 45,137 out of 52,258
  • Since beginning of last month:
    • Site-wide: 46,362 out of 52,258

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


News