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- Publications
- Influence
RDP3: a flexible and fast computer program for analyzing recombination
- D. Martin, P. Lemey, M. Lott, V. Moulton, D. Posada, P. Lefeuvre
- Computer Science, Medicine
- Bioinform.
- 26 August 2010
TLDR
RDP2: recombination detection and analysis from sequence alignments
- D. Martin, C. Williamson, D. Posada
- Biology, Medicine
- Bioinform.
- 15 January 2005
TLDR
RDP4: Detection and analysis of recombination patterns in virus genomes
- D. Martin, B. Murrell, M. Golden, Arjun Khoosal, B. Muhire
- Biology, Medicine
- Virus evolution
- 1 March 2015
RDP4 is the latest version of recombination detection program (RDP), a Windows computer program that implements an extensive array of methods for detecting and visualising recombination in, and… Expand
A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints.
- D. Martin, D. Posada, K. Crandall, C. Williamson
- Biology, Medicine
- AIDS research and human retroviruses
- 21 January 2005
We have developed a modified BOOTSCAN algorithm that may be used to screen nucleotide sequence alignments for evidence of recombination without prior identification of nonrecombinant reference… Expand
SDT: A Virus Classification Tool Based on Pairwise Sequence Alignment and Identity Calculation
- B. Muhire, A. Varsani, D. Martin
- Biology, Medicine
- PloS one
- 26 September 2014
The perpetually increasing rate at which viral full-genome sequences are being determined is creating a pressing demand for computational tools that will aid the objective classification of these… Expand
Recombination Patterns in Aphthoviruses Mirror Those Found in Other Picornaviruses
- L. Heath, E. van der Walt, A. Varsani, D. Martin
- Biology, Medicine
- Journal of Virology
- 13 September 2006
ABSTRACT Foot-and-mouth disease virus (FMDV) is thought to evolve largely through genetic drift driven by the inherently error-prone nature of its RNA polymerase. There is, however, increasing… Expand
Revision of Begomovirus taxonomy based on pairwise sequence comparisons
- J. Brown, F. M. Zerbini, +12 authors A. Varsani
- Biology, Medicine
- Archives of Virology
- 18 April 2015
Viruses of the genus Begomovirus (family Geminiviridae) are emergent pathogens of crops throughout the tropical and subtropical regions of the world. By virtue of having a small DNA genome that is… Expand
Gene-wide identification of episodic selection.
- B. Murrell, Steven Weaver, +9 authors Sergei L. Kosakovsky Pond
- Biology, Medicine
- Molecular biology and evolution
- 19 February 2015
We present BUSTED, a new approach to identifying gene-wide evidence of episodic positive selection, where the non-synonymous substitution rate is transiently greater than the synonymous rate. BUSTED… Expand
Robust inference of positive selection from recombining coding sequences
- K. Scheffler, D. Martin, C. Seoighe
- Biology, Medicine
- Bioinform.
- 29 September 2006
TLDR
Evidence of Unique Genotypes of Beak and Feather Disease Virus in Southern Africa
- L. Heath, D. Martin, +5 authors A. Williamson
- Biology, Medicine
- Journal of Virology
- 1 September 2004
ABSTRACT Psittacine beak and feather disease (PBFD), caused by Beak and feather disease virus (BFDV), is the most significant infectious disease in psittacines. PBFD is thought to have originated in… Expand