Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: ExperimentHub

https://packages.ecosyste.ms/registries/bioconductor.org/packages/ExperimentHub

Client to access ExperimentHub resources
1 version
Latest release: about 1 year ago
53 dependent packages
341,583 downloads total

Papers Mentioning ExperimentHub 11

10.12688/f1000research.9973.2

BgeeDB, an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests
Cited by: 20
Author(s): Andrea Komljenović, Julien Roux, Julien Wollbrett, Marc Robinson‐Rechavi, Frederic Bastian
Software Mentions: 33
Published: over 6 years ago

10.12688/f1000research.18456.1

A step-by-step guide to analyzing CAGE data using R/Bioconductor
Cited by: 10
Author(s): Malte Thodberg, Albin Sandelin
Software Mentions: 20
Published: over 5 years ago

10.12688/gatesopenres.12832.2

DataPackageR: Reproducible data preprocessing, standardization and sharing using R/Bioconductor for collaborative data analysis
Cited by: 7
Author(s): Greg Finak, Bryan T. Mayer, William J. Fulp, Paul Obrecht, Alicia Sato, Eva Yin-han Chung, Drienna Holman, Raphaël Gottardo
Software Mentions: 19
Published: over 6 years ago

10.1093/gigascience/giaa010

Interpretable and accurate prediction models for metagenomics data
Cited by: 29
Author(s): Edi Prifti, Yann Chevaleyre, Blaise Hanczar, Eugeni Belda, Antoine Danchin, Karine Clément, Jean-Daniel Zucker
Software Mentions: 18
Published: over 4 years ago

10.12688/f1000research.22969.2

clustifyr: an R package for automated single-cell RNA sequencing cluster classification
Cited by: 58
Author(s): Rui Fu, Austin E. Gillen, Ryan M. Sheridan, Chengzhe Tian, Michelle Daya, Yue Hao, Jay R. Hesselberth, Kent Riemondy
Software Mentions: 12
Published: over 4 years ago

10.3390/ijms22179337

Altered DNA Methylation Profiles in SF3B1 Mutated CLL Patients
Cited by: 3
Author(s): Alicja Pacholewska, Christina Grimm, Carmen D. Herling, Matthias Lienhard, Anja Königs, Bernd Timmermann, Janine Altmüller, Oliver Mücke, Hans Christian Reinhardt, Christoph Plass, Ralf Herwig, Michael Hallek, Michal R. Schweiger
Software Mentions: 6
Published: about 3 years ago

10.1093/bioinformatics/btaa591

Epiviz File Server: Query, transform and interactively explore data from indexed genomic files
Cited by: 4
Author(s): Jayaram Kancherla, Yifan Yang, Hyeyun Chae, Héctor Corrada Bravo
Software Mentions: 6
Published: over 4 years ago

10.1038/s41598-021-86070-z

A flexible microfluidic system for single-cell transcriptome profiling elucidates phased transcriptional regulators of cell cycle
Cited by: 7
Author(s): Karen Davey, Daniel Wong, Filip A. Konopacki, Eugene Kwa, Tony Ly, Heike Fiegler, Christopher R. Sibley
Software Mentions: 5
Published: over 3 years ago

10.1200/CCI.19.00111

Global Alliance for Genomics and Health Meets Bioconductor: Toward Reproducible and Agile Cancer Genomics at Cloud Scale
Cited by: 3
Author(s): Vincent J. Carey, Marcel Ramos, Benjamin J. Stubbs, Shweta Gopaulakrishnan, Sehyun Oh, Nitesh Turaga, Levi Waldron, Martin Morgan
Software Mentions: 3
Published: about 4 years ago

10.1038/s41598-019-45165-4

MetaGxData: Clinically Annotated Breast, Ovarian and Pancreatic Cancer Datasets and their Use in Generating a Multi-Cancer Gene Signature
Cited by: 26
Author(s): Deena M.A. Gendoo, Michael Zon, Vandana Sandhu, Venkata SK. Manem, Natchar Ratanasirigulchai, Gregory M. Chen, Levi Waldron, Benjamin Haibe‐Kains
Software Mentions: 3
Published: over 5 years ago

10.12688/f1000research.20210.2

HDCytoData: Collection of high-dimensional cytometry benchmark datasets in Bioconductor object formats
Cited by: 9
Author(s): Lukas M. Weber, Charlotte Soneson
Software Mentions: 2
Published: almost 5 years ago