Matthew E. Ritchie

Publication Activity (10 Years)

Years Active: 2006-2024
Publications (10 Years): 7

Top Topics

Statistical Analysis

Top Venues

PLoS Comput. Biol.

Publications

Oliver Cheng, Min Hao Ling, Changqing Wang, Shuyi Wu, Matthew E. Ritchie, Jonathan Göke, Noorul Amin, Nadia M. Davidson
Flexiplex: a versatile demultiplexer and search tool for omics data. Bioinform. 40 (3) (2024)
Shian Su, Quentin Gouil, Marnie E. Blewitt, Dianne Cook, Peter F. Hickey, Matthew E. Ritchie
NanoMethViz: An R/Bioconductor package for visualizing long-read methylation data. PLoS Comput. Biol. 17 (10) (2021)
Shian Su, Luyi Tian, Xueyi Dong, Peter F. Hickey, Saskia Freytag, Matthew E. Ritchie
CellBench: R/Bioconductor software for comparing single-cell RNA-seq analysis methods. Bioinform. 36 (7) (2020)
Shian Su, Vincent J. Carey, Lori A. Shepherd, Matthew E. Ritchie, Martin T. Morgan, Sean R. Davis
package ecosystem. F1000Research 8 (2019)
Luyi Tian, Shian Su, Xueyi Dong, Daniela Amann-Zalcenstein, Christine Biben, Azadeh Seidi, Douglas J. Hilton, Shalin H. Naik, Matthew E. Ritchie
scPipe: A flexible R/Bioconductor preprocessing pipeline for single-cell RNA-sequencing data. PLoS Comput. Biol. 14 (8) (2018)
Shian Su, Charity W. Law, Casey Ah-Cann, Marie-Liesse Asselin-Labat, Marnie E. Blewitt, Matthew E. Ritchie
Glimma: interactive graphics for gene expression analysis. Bioinform. 33 (13) (2017)
Monther Alhamdoosh, Milica Ng, Nicholas J. Wilson, Julie M. Sheridan, Huy Huynh, Michael J. Wilson, Matthew E. Ritchie
Combining multiple tools outperforms individual methods in gene set enrichment analyses. Bioinform. 33 (3) (2017)
Ruijie Liu, Zhiyin Dai, Meredith Yeager, Rafael A. Irizarry, Matthew E. Ritchie
KRLMM: an adaptive genotype calling method for common and low frequency variants. BMC Bioinform. 15 (2014)
Mike L. Smith, Keith A. Baggerly, Henrik Bengtsson, Matthew E. Ritchie, Kasper D. Hansen
: An open source IDAT parsing tool for Illumina microarrays. F1000Research 2 (2013)
Ruijie Liu, Ana-Teresa Maia, Roslin Russell, Carlos Caldas, Bruce A. Ponder, Matthew E. Ritchie
Allele-specific expression analysis methods for high-density SNP microarray data. Bioinform. 28 (8) (2012)
Matthew E. Ritchie, Mark J. Dunning, Mike L. Smith, Wei Shi, Andy G. Lynch
BeadArray Expression Analysis Using Bioconductor. PLoS Comput. Biol. 7 (12) (2011)
Matthew E. Ritchie, Ruijie Liu, Benilton S. Carvalho, Rafael A. Irizarry
Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips. BMC Bioinform. 12 (2011)
Matthew E. Ritchie, Matthew S. Forrest, Antigone S. Dimas, Caroline Daelemans, Emmanouil T. Dermitzakis, Panagiotis Deloukas, Simon Tavaré
Data analysis issues for allele-specific expression using Illumina's GoldenGate assay. BMC Bioinform. 11 (2010)
Matthew E. Ritchie, Benilton S. Carvalho, Kurt N. Hetrick, Simon Tavaré, Rafael A. Irizarry
R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips. Bioinform. 25 (19) (2009)
Wei Shi, Ashish Banerjee, Matthew E. Ritchie, Steve Gerondakis, Gordon K. Smyth
Illumina WG-6 BeadChip strips should be normalized separately. BMC Bioinform. 10 (2009)
Nava Whiteford, Tom Skelly, Christina Curtis, Matthew E. Ritchie, Andrea Löhr, Alexander Wait Zaranek, Irina I. Abnizova, Clive Brown
Swift: primary data analysis for the Illumina Solexa sequencing platform. Bioinform. 25 (17) (2009)
Jonathan M. Cairns, Mark J. Dunning, Matthew E. Ritchie, Roslin Russell, Andy G. Lynch
BASH: a tool for managing BeadArray spatial artefacts. Bioinform. 24 (24) (2008)
Mark J. Dunning, Nuno L. Barbosa-Morais, Andy G. Lynch, Simon Tavaré, Matthew E. Ritchie
Statistical issues in the analysis of Illumina data. BMC Bioinform. 9 (2008)
Mark J. Dunning, Mike L. Smith, Matthew E. Ritchie, Simon Tavaré
beadarray: R classes and methods for Illumina bead-based data. Bioinform. 23 (16) (2007)
Matthew E. Ritchie, Jeremy David Silver, Alicia Oshlack, Melissa Holmes, Dileepa S. Diyagama, Andrew J. Holloway, Gordon K. Smyth
A comparison of background correction methods for two-colour microarrays. Bioinform. 23 (20) (2007)
Matthew E. Ritchie, Dileepa S. Diyagama, Jody Neilson, Ryan van Laar, Alexander Dobrovic, Andrew J. Holloway, Gordon K. Smyth
Empirical array quality weights in the analysis of microarray data. BMC Bioinform. 7 (2006)