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Author: David Koslicki

Rankings

  • All-time downloads: 27,291 (rank: 8,615 )
  • Categories:
    • bioinformatics: 21,506 (rank: 331 )
    • ecology: 457 (rank: 12,866 (tie) )
    • microbiology: 4,857 (rank: 3,912 )
    • systems biology: 471 (rank: 10,931 (tie) )

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Preprints

Debiasing FracMinHash and deriving confidence intervals for mutation rates across a wide range of evolutionary distances

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The minimizer Jaccard estimator is biased and inconsistent

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Lightweight compositional analysis of metagenomes with FracMinHash and minimum metagenome covers

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Using the UniFrac metric on Whole Genome Shotgun data

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Critical Assessment of Metagenome Interpretation − a benchmark of computational metagenomics software

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    • In bioinformatics: 93
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Transcriptome analysis in whole blood reveals increased microbial diversity in schizophrenia

microbiology more details view paper
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    • Site-wide: 3,550
    • In microbiology: 247
  • Year to date:
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Improving Min Hash via the Containment Index with applications to Metagenomic Analysis

bioinformatics more details view paper
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    • In bioinformatics: 711
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Critical Assessment of Metagenome Interpretation - the second round of challenges

bioinformatics more details view paper
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    • In bioinformatics: 1,122
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MiCoP: Microbial Community Profiling method for detecting viral and fungal organisms in metagenomic samples

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    • In bioinformatics: 1,839
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MetaPalette: A K-mer painting approach for metagenomic taxonomic profiling and quantification of novel strain variation

bioinformatics more details view paper
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    • In bioinformatics: 2,044
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Tutorial: Assessing metagenomics software with the CAMI benchmarking toolkit

bioinformatics more details view paper
  • Downloaded 1,126 times
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    • In bioinformatics: 2,759
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Improving the usability and comprehensiveness of microbial databases

bioinformatics more details view paper
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    • In bioinformatics: 3,118
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The statistics of k-mers from a sequence undergoing a simple mutation process without spurious matches

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    • Site-wide: 33,854
    • In bioinformatics: 3,652
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Reference-free comparison of microbial communities via de Bruijn graphs

bioinformatics more details view paper
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    • In bioinformatics: 3,755
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Metalign: Efficient alignment-based metagenomic profiling via containment min hash

bioinformatics more details view paper
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    • In bioinformatics: 3,997
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Leveraging Distributed Biomedical Knowledge Sources to Discover Novel Uses for Known Drugs

bioinformatics more details view paper
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    • In bioinformatics: 4,096
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EMDUnifrac: Exact linear time computation of the Unifrac metric and identification of differentially abundant organisms

microbiology more details view paper
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    • In microbiology: 3,432
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Assessing taxonomic metagenome profilers with OPAL

bioinformatics more details view paper
  • Downloaded 531 times
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    • Site-wide: 70,706
    • In bioinformatics: 6,660
  • Year to date:
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    • Site-wide: 117,035

IndeCut evaluates performance of network motif discovery algorithms

systems biology more details view paper
  • Downloaded 471 times
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    • Site-wide: 81,134
    • In systems biology: 1,794
  • Year to date:
    • Site-wide: 124,761
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    • Site-wide: 150,877

Exact probabilities for the indeterminacy of complex networks as perceived through press perturbations

ecology more details view paper
  • Downloaded 457 times
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    • Site-wide: 83,940
    • In ecology: 2,228
  • Year to date:
    • Site-wide: 112,267
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    • Site-wide: 147,399

RTX-KG2: a system for building a semantically standardized knowledge graph for translational biomedicine

bioinformatics more details view paper
  • Downloaded 231 times
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    • Site-wide: 139,434
    • In bioinformatics: 10,945
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    • Site-wide: 10,365
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    • Site-wide: 18,447

Finer Metagenomic Reconstruction via Biodiversity Optimization

bioinformatics more details view paper
  • Downloaded 204 times
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    • Site-wide: 146,503
    • In bioinformatics: 11,330
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CMash: fast, multi-resolution estimation of k-mer-based Jaccard and containment indices

bioinformatics more details view paper
  • Downloaded 110 times
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    • Site-wide: 165,026
    • In bioinformatics: 12,373
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