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Author: Charlotte Soneson

Rankings

  • All-time downloads: 41,707 (rank: 4,336 )
  • Categories:
    • bioinformatics: 35,610 (rank: 84 )
    • cell biology: 244 (rank: 34,715 (tie) )
    • developmental biology: 998 (rank: 4,674 (tie) )
    • genomics: 4,855 (rank: 5,300 (tie) )

Downloads per author, site-wide

Preprints

Alignment and mapping methodology influence transcript abundance estimation

bioinformatics more details view paper
  • Downloaded 5,609 times
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    • Site-wide: 2,049
    • In bioinformatics: 152
  • Year to date:
    • Site-wide: 5,373
  • Since beginning of last month:
    • Site-wide: 74,558

On the discovery of subpopulation-specific state transitions from multi-sample multi-condition single-cell RNA sequencing data

bioinformatics more details view paper
  • Downloaded 5,268 times
  • Download rankings, all-time:
    • Site-wide: 2,226
    • In bioinformatics: 172
  • Year to date:
    • Site-wide: 5,707
  • Since beginning of last month:
    • Site-wide: 83,573

Bias, Robustness And Scalability In Differential Expression Analysis Of Single-Cell RNA-Seq Data

bioinformatics more details view paper
  • Downloaded 5,128 times
  • Download rankings, all-time:
    • Site-wide: 2,313
    • In bioinformatics: 182
  • Year to date:
    • Site-wide: 20,598
  • Since beginning of last month:
    • Site-wide: 10,730

Orchestrating Single-Cell Analysis with Bioconductor

genomics more details view paper
  • Downloaded 4,855 times
  • Download rankings, all-time:
    • Site-wide: 2,511
    • In genomics: 244
  • Year to date:
    • Site-wide: 2,596
  • Since beginning of last month:
    • Site-wide: 85,589

Preprocessing choices affect RNA velocity results for droplet scRNA-seq data

bioinformatics more details view paper
  • Downloaded 3,526 times
  • Download rankings, all-time:
    • Site-wide: 3,906
    • In bioinformatics: 369
  • Year to date:
    • Site-wide: 3,218
  • Since beginning of last month:
    • Site-wide: 49,087

Differential transcript usage from RNA-seq data: isoform pre-filtering improves performance of count-based methods

bioinformatics more details view paper
  • Downloaded 2,424 times
  • Download rankings, all-time:
    • Site-wide: 6,700
    • In bioinformatics: 719
  • Year to date:
    • Site-wide: 71,257
  • Since beginning of last month:
    • Site-wide: None

A comprehensive examination of Nanopore native RNA sequencing for characterization of complex transcriptomes

bioinformatics more details view paper
  • Downloaded 2,419 times
  • Download rankings, all-time:
    • Site-wide: 6,724
    • In bioinformatics: 725
  • Year to date:
    • Site-wide: 31,008
  • Since beginning of last month:
    • Site-wide: None

diffcyt: Differential discovery in high-dimensional cytometry via high-resolution clustering

bioinformatics more details view paper
  • Downloaded 2,272 times
  • Download rankings, all-time:
    • Site-wide: 7,377
    • In bioinformatics: 818
  • Year to date:
    • Site-wide: 69,285
  • Since beginning of last month:
    • Site-wide: 106,576

zingeR: unlocking RNA-seq tools for zero-inflation and single cell applications

bioinformatics more details view paper
  • Downloaded 2,093 times
  • Download rankings, all-time:
    • Site-wide: 8,288
    • In bioinformatics: 937
  • Year to date:
    • Site-wide: 62,294
  • Since beginning of last month:
    • Site-wide: 74,910

ARMOR: an Automated Reproducible MOdular workflow for preprocessing and differential analysis of RNA-seq data

bioinformatics more details view paper
  • Downloaded 1,150 times
  • Download rankings, all-time:
    • Site-wide: 20,202
    • In bioinformatics: 2,318
  • Year to date:
    • Site-wide: 111,778
  • Since beginning of last month:
    • Site-wide: 52,886

Hand2 delineates mesothelium progenitors and is reactivated in mesothelioma

developmental biology more details view paper
  • Downloaded 998 times
  • Download rankings, all-time:
    • Site-wide: 24,871
    • In developmental biology: 450
  • Year to date:
    • Site-wide: 7,699
  • Since beginning of last month:
    • Site-wide: 73,821

Observation weights to unlock bulk RNA-seq tools for zero inflation and single-cell applications

bioinformatics more details view paper
  • Downloaded 976 times
  • Download rankings, all-time:
    • Site-wide: 25,701
    • In bioinformatics: 2,908
  • Year to date:
    • Site-wide: 111,091
  • Since beginning of last month:
    • Site-wide: 96,151

treeclimbR pinpoints the data-dependent resolution of hierarchical hypotheses

bioinformatics more details view paper
  • Downloaded 846 times
  • Download rankings, all-time:
    • Site-wide: 31,501
    • In bioinformatics: 3,487
  • Year to date:
    • Site-wide: 23,005
  • Since beginning of last month:
    • Site-wide: 49,994

Tximeta: reference sequence checksums for provenance identification in RNA-seq

bioinformatics more details view paper
  • Downloaded 734 times
  • Download rankings, all-time:
    • Site-wide: 38,363
    • In bioinformatics: 4,126
  • Year to date:
    • Site-wide: 90,643
  • Since beginning of last month:
    • Site-wide: 106,914

A general and powerful stage-wise testing procedure for differential expression and differential transcript usage

bioinformatics more details view paper
  • Downloaded 720 times
  • Download rankings, all-time:
    • Site-wide: 39,407
    • In bioinformatics: 4,229
  • Year to date:
    • Site-wide: 128,824
  • Since beginning of last month:
    • Site-wide: 46,017

CellMixS: quantifying and visualizing batch effects in single cell RNA-seq data

bioinformatics more details view paper
  • Downloaded 688 times
  • Download rankings, all-time:
    • Site-wide: 41,828
    • In bioinformatics: 4,466
  • Year to date:
    • Site-wide: 19,203
  • Since beginning of last month:
    • Site-wide: 90,621

A junction coverage compatibility score to quantify the reliability of transcript abundance estimates and annotation catalogs

bioinformatics more details view paper
  • Downloaded 621 times
  • Download rankings, all-time:
    • Site-wide: 47,790
    • In bioinformatics: 4,949
  • Year to date:
    • Site-wide: 113,252
  • Since beginning of last month:
    • Site-wide: 108,947

iCOBRA: open, reproducible, standardized and live method benchmarking

bioinformatics more details view paper
  • Downloaded 595 times
  • Download rankings, all-time:
    • Site-wide: 50,475
    • In bioinformatics: 5,145
  • Year to date:
    • Site-wide: 149,289
  • Since beginning of last month:
    • Site-wide: None

Alevin-fry unlocks rapid, accurate, and memory-frugal quantification of single-cell RNA-seq data

bioinformatics more details view paper
  • Downloaded 272 times
  • Download rankings, all-time:
    • Site-wide: 106,003
    • In bioinformatics: 8,941
  • Year to date:
    • Site-wide: 21,814
  • Since beginning of last month:
    • Site-wide: 42,503

Accounting for fragments of unexpectedorigin improves transcript quantification inRNA-seq simulations focused on increased realism

bioinformatics more details view paper
  • Downloaded 269 times
  • Download rankings, all-time:
    • Site-wide: 106,763
    • In bioinformatics: 8,989
  • Year to date:
    • Site-wide: 22,123
  • Since beginning of last month:
    • Site-wide: 16,298

Mass Cytometric and Transcriptomic Profiling of Epithelial-Mesenchymal Transitions in Human Mammary Cell Lines

cell biology more details view paper
  • Downloaded 244 times
  • Download rankings, all-time:
    • Site-wide: 112,744
    • In cell biology: 5,229
  • Year to date:
    • Site-wide: 25,271
  • Since beginning of last month:
    • Site-wide: 95,021

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