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http://www.cs.dal.ca/~whidden
https://github.com/cwhidden/

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Scopus Author ID: 35106349500

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Employment (3)

Dalhousie University: Halifax, NS, CA

2020-07-01 to present | Assistant Professor (Faculty of Computer Science)
Employment
Source: Self-asserted source
Christopher Whidden

DeepSense: Halifax, Nova Scotia, CA

2018-07-31 to 2020-06-30 | Algorithms and Software Specialist
Employment
Source: Self-asserted source
Christopher Whidden

Fred Hutchinson Cancer Research Center: Seattle, WA, US

2013-07-01 to 2018-07-31 | Postdoctoral Research Fellow (Computational Biology)
Employment
Source: Self-asserted source
Christopher Whidden

Education and qualifications (1)

Dalhousie University: Halifax, NS, CA

2009-09 to 2013-08 | Doctor of Philosophy (Computer Science) (Faculty of Computer Science)
Education
Source: Self-asserted source
Christopher Whidden

Works (23)

Ranked Subtree Prune and Regraft

Bulletin of Mathematical Biology
2024-03 | Journal article
DOI: 10.1007/s11538-023-01244-2
Contributors: Lena Collienne; Chris Whidden; Alex Gavryushkin
Source: check_circle
Crossref

Toward low-cost automated monitoring of life below water with deep learning

Environmental Data Science
2023 | Journal article
DOI: 10.1017/eds.2023.8
Contributors: Devi Ayyagari; Corey Morris; Joshua Barnes; Christopher Whidden
Source: check_circle
Crossref

Ranked Subtree Prune and Regraft

2023-05-18 | Preprint
DOI: 10.1101/2023.05.16.541039
Contributors: Lena Collienne; Chris Whidden; Alex Gavryushkin
Source: check_circle
Crossref

19 Dubious Ways to Compute the Marginal Likelihood of a Phylogenetic Tree Topology

Systematic Biology
2020 | Journal article
DOI: 10.1093/sysbio/syz046
EID:

2-s2.0-85079349578

Part of ISSN: 1076836X 10635157
Contributors: Fourment, M.; Magee, A.F.; Whidden, C.; Bilge, A.; Matsen, F.A.; Minin, V.N.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

A machine learning redundancy model for the herring cove smart buoy

Journal of Ocean Technology
2020 | Journal article
EID:

2-s2.0-85091599237

Part of ISSN: 17183200
Contributors: Fasuyi, J.W.; Newport, J.; Whidden, C.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

Systematic Exploration of the High Likelihood Set of Phylogenetic Tree Topologies

Systematic Biology
2020 | Journal article
DOI: 10.1093/sysbio/syz047
EID:

2-s2.0-85079342399

Part of ISSN: 1076836X 10635157
Contributors: Whidden, C.; Claywell, B.C.; Fisher, T.; Magee, A.F.; Fourment, M.; Matsen, F.A.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

Barriers to enterprise involvement in ocean data analytics

The Journal of Ocean Technology
2019 | Journal article
EID:

2-s2.0-85077627854

Part of ISSN: 17183200
Contributors: Whidden, C.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

Calculating the Unrooted Subtree Prune-and-Regraft Distance

IEEE/ACM Transactions on Computational Biology and Bioinformatics
2019-05-01 | Journal article
DOI: 10.1109/TCBB.2018.2802911
Contributors: Chris Whidden; Frederick A. Matsen
Source: check_circle
Crossref
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Preferred source (of 2)‎

Efficiently inferring pairwise subtree prune-and-regraft adjacencies between phylogenetic trees

2018 Proceedings of the 15th Workshop on Analytic Algorithmics and Combinatorics, ANALCO 2018
2018 | Conference paper
DOI: 10.1137/1.9781611975062.8
EID:

2-s2.0-85043356617
Contributors: Whidden, C.; Matsen, F.A.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

The combinatorics of discrete time-trees: theory and open problems

Journal of Mathematical Biology
2018-04-29 | Journal article
DOI: 10.1007/s00285-017-1167-9
Contributors: Alex Gavryushkin; Chris Whidden; Frederick A. Matsen, IV
Source: check_circle
Crossref
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A Resolution of the Static Formulation Question for the Problem of Computing the History Bound

IEEE/ACM Transactions on Computational Biology and Bioinformatics
2017 | Journal article
DOI: 10.1109/TCBB.2016.2527645
EID:

2-s2.0-85017124994

Part of ISSN: 15455963
Contributors: Matsieva, J.; Kelk, S.; Scornavacca, C.; Whidden, C.; Gusfield, D.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

Ricci–Ollivier curvature of the rooted phylogenetic subtree–prune–regraft graph

Theoretical Computer Science
2017-11 | Journal article
DOI: 10.1016/j.tcs.2017.02.006
Contributors: Chris Whidden; Frederick A. Matsen, IV
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Fixed-Parameter and Approximation Algorithms for Maximum Agreement Forests of Multifurcating Trees

Algorithmica
2016 | Journal article
DOI: 10.1007/s00453-015-9983-z
EID:

2-s2.0-84959188713

Part of ISSN: 14320541 01784617
Contributors: Whidden, C.; Beiko, R.G.; Zeh, N.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

Hybridization number on three rooted binary trees is EPT

SIAM Journal on Discrete Mathematics
2016 | Journal article
DOI: 10.1137/15M1036579
EID:

2-s2.0-84990960853

Part of ISSN: 08954801
Contributors: Van Iersel, L.; Kelk, S.; Lekić, N.; Whidden, C.; Zeh, N.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

Ricci-Ollivier curvature of the rooted phylogenetic subtree-prune-regraft graph

13th Workshop on Analytic Algorithmics and Combinatorics 2016, ANALCO 2016
2016 | Conference paper
DOI: 10.1137/1.9781611974324.6
EID:

2-s2.0-84965096359
Contributors: Whidden, C.; Matsen, F.A.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

The combinatorics of discrete time-trees: theory and open problems

2016-07-12 | Other
DOI: 10.1101/063362
Contributors: Alex Gavryushkin; Chris Whidden; Frederick A Matsen, IV
Source: check_circle
Crossref

Quantifying MCMC exploration of phylogenetic tree space

Systematic Biology
2015 | Journal article
DOI: 10.1093/sysbio/syv006
EID:

2-s2.0-84929590793

Part of ISSN: 1076836X 10635157
Contributors: Whidden, C.; Matsen, F.A.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

Supertrees Based on the Subtree Prune-and-Regraft Distance

Systematic Biology
2014-04-02 | Journal article
DOI:

10.1093/sysbio/syu023

Part of ISSN:

1063-5157
Contributors: C. Whidden; N. Zeh; R. G. Beiko
Source: Self-asserted source
Christopher Whidden via Crossref Metadata Search
grade
Preferred source (of 2)‎

Interactions in the microbiome: communities of organisms and communities of genes

FEMS Microbiol Rev
2014-01 | Journal article
DOI:

10.1111/1574-6976.12035

Part of ISSN:

0168-6445
Contributors: Eva Boon; Conor J. Meehan; Chris Whidden; Dennis H.-J. Wong; Morgan G.I. Langille; Robert G. Beiko
Source: Self-asserted source
Christopher Whidden via Crossref Metadata Search
grade
Preferred source (of 2)‎

Fixed-Parameter Algorithms for Maximum Agreement Forests

SIAM J. Comput.
2013-01 | Journal article
DOI:

10.1137/110845045

Part of ISSN:

0097-5397
Contributors: Chris Whidden; Robert G. Beiko; Norbert Zeh
Source: Self-asserted source
Christopher Whidden via Crossref Metadata Search
grade
Preferred source (of 2)‎

A Unifying View on Approximation and FPT of Agreement Forests

Algorithms in Bioinformatics
2009 | Other
DOI:

10.1007/978-3-642-04241-6_32

ISSN:

0302-9743

ISBN:

978-3-642-04240-9
Contributors: Chris Whidden; Norbert Zeh
Source: Self-asserted source
Christopher Whidden via Crossref Metadata Search
grade
Preferred source (of 4)‎

Finding optimal parameters for edit distance based sequence classification is NP-hard

Proceedings of the KDD-09 Workshop on Statistical and Relational Learning in Bioinformatics - StReBio '09
2009 | Conference paper
DOI:

10.1145/1562090.1562094

Part of ISBN:

9781605586670
Contributors: Vlado Kešelj; Haibin Liu; Norbert Zeh; Christian Blouin; Chris Whidden
Source: Self-asserted source
Christopher Whidden via Crossref Metadata Search
grade
Preferred source (of 2)‎

DalTREC 2005 QA system jellyfish: Mark-and-match approach to question answering

NIST Special Publication
2005 | Conference paper
EID:

2-s2.0-84873535335

Part of ISSN: 1048776X
Contributors: Abou-Assaleh, T.; Cercone, N.; Doyle, J.; Kešelj, V.; Whidden, C.
Source: Self-asserted source
Christopher Whidden via Scopus - Elsevier

Peer review (2 reviews for 2 publications/grants)

Review activity for PLoS computational biology. (1)
Review activity for SIAM journal on discrete mathematics. (1)
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