default search action
Google
Google Scholar
Semantic Scholar
Internet Archive Scholar
CiteSeerX
ORCIDSusan P. Holmes
Person information
- affiliation: Stanford University, Department of Statistics, USA
- affiliation (PhD 1985): Montpellier 2 University, France
Refine list
refinements active!
zoomed in on ?? of ?? records
view refined list in
export refined list as
2020 – today
- 2025
[j25]Jenny Drnevich, Frederick J. Tan, Fabricio Almeida-Silva, Robert Castelo, Aedín C. Culhane, Sean R. Davis, Maria A. Doyle, Ludwig Geistlinger, Andrew R. Ghazi, Susan P. Holmes, Leo Lahti, Alexandru Mahmoud, Kozo Nishida, Marcel Ramos, Kevin C. Rue-Albrecht, David J. H. Shih, Laurent Gatto, Charlotte Soneson:
Learning and teaching biological data science in the Bioconductor community. PLoS Comput. Biol. 21(4): 1012925 (2025)- 2024
- [i7]Jenny Drnevich, Frederick J. Tan, Fabricio Almeida-Silva, Robert Castelo, Aedín C. Culhane, Sean Davis
, Maria A. Doyle, Susan P. Holmes, Leo Lahti, Alexandru Mahmoud, Kozo Nishida, Marcel Ramos, Kevin C. Rue-Albrecht, David J. H. Shih, Laurent Gatto, Charlotte Soneson:
Learning and teaching biological data science in the Bioconductor community. CoRR abs/2410.01351 (2024) - 2022
- [j24]Laura Symul, Susan P. Holmes:
Labeling Self-Tracked Menstrual Health Records With Hidden Semi-Markov Models. IEEE J. Biomed. Health Informatics 26(3): 1297-1308 (2022) - 2021
- [j23]Christof Seiler, Anne-Maud Ferreira, Lisa M. Kronstad, Laura J. Simpson, Mathieu Le Gars, Elena Vendrame, Catherine A. Blish, Susan P. Holmes:
CytoGLMM: conditional differential analysis for flow and mass cytometry experiments. BMC Bioinform. 22(1): 137 (2021) - [j22]Xiao Fang, Han L. Gan, Susan P. Holmes, Haiyan Huang, Erol Peköz, Adrian Röllin, Wenpin Tang:
Arcsine laws for random walks generated from random permutations with applications to genomics. J. Appl. Probab. 58(4): 851-867 (2021) - [c11]Susan P. Holmes:
Integrating trees and networks into reproducible data analytic workflows. EGC 2021: 3-4 - 2020
- [c10]Nina Miolane, Frédéric Poitevin, Yee-Ting Li, Susan P. Holmes:
Estimation of Orientation and Camera Parameters from Cryo-Electron Microscopy Images with Variational Autoencoders and Generative Adversarial Networks. CVPR Workshops 2020: 4174-4183 - [c9]Nina Miolane, Susan P. Holmes:
Learning Weighted Submanifolds With Variational Autoencoders and Riemannian Variational Autoencoders. CVPR 2020: 14491-14499 - [c8]Nina Miolane, Nicolas Guigui, Hadi Zaatiti, Christian Shewmake, Hatem Hajri, Daniel Brooks, Alice Le Brigant, Johan Mathe, Benjamin Hou, Yann Thanwerdas, Stefan Heyder, Olivier Peltre, Niklas Koep, Yann Cabanes, Thomas Gerald, Paul Chauchat, Bernhard Kainz, Claire Donnat, Susan P. Holmes, Xavier Pennec:
Introduction to Geometric Learning in Python with Geomstats. SciPy 2020: 48-57 - [i6]Nina Miolane, Alice Le Brigant, Johan Mathe, Benjamin Hou, Nicolas Guigui, Yann Thanwerdas, Stefan Heyder, Olivier Peltre, Niklas Koep, Hadi Zaatiti, Hatem Hajri, Yann Cabanes, Thomas Gerald, Paul Chauchat, Christian Shewmake, Bernhard Kainz, Claire Donnat, Susan P. Holmes, Xavier Pennec:
Geomstats: A Python Package for Riemannian Geometry in Machine Learning. CoRR abs/2004.04667 (2020)
2010 – 2019
- 2019
- [j21]Lan H. Nguyen, Susan P. Holmes:
Ten quick tips for effective dimensionality reduction. PLoS Comput. Biol. 15(6) (2019) - [c7]Claire Donnat, Susan P. Holmes:
Convex Hierarchical Clustering for Graph-Structured Data. ACSSC 2019: 1999-2006 - [i5]Claire Donnat, Susan P. Holmes:
Convex Hierarchical Clustering for Graph-Structured Data. CoRR abs/1911.03417 (2019) - [i4]Nina Miolane, Frédéric Poitevin, Yee-Ting Li, Susan P. Holmes:
Estimation of Orientation and Camera Parameters from Cryo-Electron Microscopy Images with Variational Autoencoders and Generative Adversarial Networks. CoRR abs/1911.08121 (2019) - [i3]Nina Miolane, Susan P. Holmes:
Learning Weighted Submanifolds with Variational Autoencoders and Riemannian Variational Autoencoders. CoRR abs/1911.08147 (2019) - 2018
- [j20]Christof Seiler, Tamar Green, David Hong, Lindsay Chromik, Lynne Huffman, Susan P. Holmes, Allan L. Reiss:
Multi-Table Differential Correlation Analysis of Neuroanatomical and Cognitive Interactions in Turner Syndrome. Neuroinformatics 16(1): 81-93 (2018) - [j19]Nina Miolane, Susan P. Holmes, Xavier Pennec:
Topologically Constrained Template Estimation via Morse-Smale Complexes Controls Its Statistical Consistency. SIAM J. Appl. Algebra Geom. 2(2): 348-375 (2018) - [i2]Claire Donnat, Susan P. Holmes:
Tracking Network Dynamics: a review of distances and similarity metrics. CoRR abs/1801.07351 (2018) - 2017
- [j18]Lan H. Nguyen, Susan P. Holmes:
Bayesian Unidimensional Scaling for visualizing uncertainty in high dimensional datasets with latent ordering of observations. BMC Bioinform. 18(S-10): 65-79 (2017) - [j17]Julia Fukuyama, Laurie Rumker, Kris Sankaran, Pratheepa Jeganathan, Les Dethlefsen, David A. Relman, Susan P. Holmes:
Multidomain analyses of a longitudinal human microbiome intestinal cleanout perturbation experiment. PLoS Comput. Biol. 13(8) (2017) - [j16]Nina Miolane, Susan P. Holmes, Xavier Pennec:
Template Shape Estimation: Correcting an Asymptotic Bias. SIAM J. Imaging Sci. 10(2): 808-844 (2017) - 2016
- [c6]Benjamin J. Callahan, Diana Proctor, David A. Relman, Julia Fukuyama, Susan P. Holmes:
Reproducible Research Workflow in R for the Analysis of Personalized Human Microbiome Data. PSB 2016: 183-194 - [i1]Nina Miolane, Susan P. Holmes, Xavier Pennec:
Template shape estimation: correcting an asymptotic bias. CoRR abs/1610.01502 (2016) - 2015
- [j15]Paul J. McMurdie, Susan P. Holmes:
Shiny-phyloseq: Web application for interactive microbiome analysis with provenance tracking. Bioinform. 31(2): 282-283 (2015) - [j14]Sergio Bacallado, Persi Diaconis, Susan P. Holmes:
de Finetti Priors using Markov chain Monte Carlo computations. Stat. Comput. 25(4): 797-808 (2015) - 2014
- [j13]Paul J. McMurdie, Susan P. Holmes:
Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible. PLoS Comput. Biol. 10(4) (2014) - [c5]Christof Seiler, Simon Rubinstein-Salzedo, Susan P. Holmes:
Positive Curvature and Hamiltonian Monte Carlo. NIPS 2014: 586-594 - 2013
- [c4]Christof Seiler, Xavier Pennec, Susan P. Holmes:
Random Spatial Structure of Geometric Deformations and Bayesian Nonparametrics. GSI 2013: 120-127 - 2012
- [j12]Michael J. Rosen, Benjamin J. Callahan, Daniel S. Fisher, Susan P. Holmes:
Denoising PCR-amplified metagenome data. BMC Bioinform. 13: 283 (2012) - [c3]Julia Fukuyama, Paul J. McMurdie, Les Dethlefsen, David A. Relman, Susan P. Holmes:
Comparisons of Distance Methods for Combining Covariates and Abundances in Microbiome Studies. Pacific Symposium on Biocomputing 2012: 213-224 - [c2]Paul J. McMurdie, Susan P. Holmes:
phyloseq: A Bioconductor Package for Handling and Analysis of High-Throughput Phylogenetic Sequence Data. Pacific Symposium on Biocomputing 2012: 235-246 - 2011
- [j11]Adam Guetz, Susan P. Holmes:
Adaptive importance sampling for network growth models. Ann. Oper. Res. 189(1): 187-203 (2011) - [j10]Kathleen M. Doherty, Priyanka Nakka, Bracken M. King, Soo-Yon Rhee, Susan P. Holmes, Robert W. Shafer, Mala L. Radhakrishnan:
A multifaceted analysis of HIV-1 protease multidrug resistance phenotypes. BMC Bioinform. 12: 477 (2011) - [c1]Susan P. Holmes, Alexander V. Alekseyenko, Alden Timme, Tyrrell Nelson, Pankaj Jay Pasricha, Alfred Spormann:
Visualization and Statistical Comparisons of Microbial Communities Using R Packages on Phylochip Data. Pacific Symposium on Biocomputing 2011: 142-153 - 2010
- [j9]Elizabeth C. Reuman, Severine Margeridon-Thermet, Harrison B. Caudill, Tommy F. Liu, Katyna Borroto-Esoda, Evguenia S. Svarovskaia, Susan P. Holmes, Robert W. Shafer:
A classification model for G-to-A hypermutation in hepatitis B virus ultra-deep pyrosequencing reads. Bioinform. 26(23): 2929-2932 (2010)
2000 – 2009
- 2008
- [j8]Persi Diaconis, Susan P. Holmes, Svante Janson:
Threshold Graph Limits and Random Threshold Graphs. Internet Math. 5(3): 267-320 (2008) - 2007
- [j7]Serban Nacu, Rebecca Critchley-Thorne, Peter P. Lee, Susan P. Holmes:
Gene expression network analysis and applications to immunology. Bioinform. 23(7): 850-858 (2007) - [j6]Soo-Yon Rhee, Tommy F. Liu, Susan P. Holmes, Robert W. Shafer:
HIV-1 Subtype B Protease and Reverse Transcriptase Amino Acid Covariation. PLoS Comput. Biol. 3(5) (2007) - [j5]Persi Diaconis, Susan P. Holmes, Richard Montgomery:
Dynamical Bias in the Coin Toss. SIAM Rev. 49(2): 211-235 (2007) - [p1]Susan P. Holmes:
Statistical approaches to test involving phylogenetics. Mathematics of Evolution and Phylogeny 2007 - 2004
- [j4]Ali E. Abbas, Susan P. Holmes:
Bioinformatics and Management Science: Some Common Tools and Techniques. Oper. Res. 52(2): 165-190 (2004) - 2002
- [j3]Louis J. Billera, Susan P. Holmes, Karen Vogtmann:
Erratum to: "Geometry of the Space of Phylogenetic Trees": [Adv. in Appl. Math. 27 (2001) 733-767]. Adv. Appl. Math. 29(1): 136 (2002) - 2001
- [j2]Louis J. Billera, Susan P. Holmes, Karen Vogtmann:
Geometry of the Space of Phylogenetic Trees. Adv. Appl. Math. 27(4): 733-767 (2001)
1990 – 1999
- 1997
- [j1]Philippe Lagacherie, Susan P. Holmes:
Addressing Geographical Data Errors in a Classification Tree for Soil Unit Prediction. Int. J. Geogr. Inf. Sci. 11(2): 183-198 (1997)
Coauthor Index
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
Unpaywalled article links
Add open access links from 
to the list of external document links (if available).
Privacy notice: By enabling the option above, your browser will contact the API of unpaywall.org to load hyperlinks to open access articles. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Unpaywall privacy policy.
Archived links via Wayback Machine
For web page which are no longer available, try to retrieve content from the 
of the Internet Archive (if available).
Privacy notice: By enabling the option above, your browser will contact the API of archive.org to check for archived content of web pages that are no longer available. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Internet Archive privacy policy.
Reference lists
Add a list of references from 
, 
, and 
to record detail pages.
load references from crossref.org and opencitations.net
Privacy notice: By enabling the option above, your browser will contact the APIs of crossref.org, opencitations.net, and semanticscholar.org to load article reference information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Crossref privacy policy and the OpenCitations privacy policy, as well as the AI2 Privacy Policy covering Semantic Scholar.
Citation data
Add a list of citing articles from and to record detail pages.
load citations from opencitations.net
Privacy notice: By enabling the option above, your browser will contact the API of opencitations.net and semanticscholar.org to load citation information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the OpenCitations privacy policy as well as the AI2 Privacy Policy covering Semantic Scholar.
OpenAlex data
Load additional information about publications from 
.
Privacy notice: By enabling the option above, your browser will contact the API of openalex.org to load additional information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the information given by OpenAlex.
last updated on 2025-05-08 21:24 CEST by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint
dblp was originally created in 1993 at:
since 2018, dblp has been operated and maintained by:
the dblp computer science bibliography is funded and supported by:
