Amelia II: A Program for Missing Data
Open accessAbstract
Amelia II is a complete R package for multiple imputation of missing data. The package implements a new expectation-maximization with bootstrapping algorithm that works faster, with larger numbers of variables, and is far easier to use, than various Markov chain Monte Carlo approaches, but gives essentially the same answers. The program also improves imputation models by allowing researchers to put Bayesian priors on individual cell values, thereby including a great deal of potentially valuable and extensive information. It also includes features to accurately impute cross-sectional datasets, individual time series, or sets of time series for different cross-sections. A full set of graphical diagnostics are also available. The program is easy to use, and the simplicity of the algorithm makes it far more robust; both a simple command line and extensive graphical user interface are included.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
The Amelia II R package was selected due to the statistical validity of its approach in handling time-series, cross-sectional data.
“The Amelia II R package was selected due to the statistical validity of its approach in handling time-series, cross-sectional data (Honaker & King, 2010;Honaker et al., 2011).”
From A single-case experimental evaluation of a new group-based intervention to enhance adjustment to life with acquired brain injury: VaLiANT (valued living after neurological trauma) (2022) · cites this paper as Honaker et al., 2011
Cites
Multiple Imputation for Nonresponse in Surveys
Rubin, D. B. (1987) · Wiley Series in Probability and Statistics · doi:10.1002/9780470316696 · Cited by 20,701 · see citing works
What to do about missing values in time series cross- section data
Honaker, J., & King, G. (2010) · American Journal of Political Science · doi:10.1111/j.1540-5907.2010.00447.x · Cited by 966 · see citing works
Self-citation
Flagged first, then by citations
Cited by
Sorted by citations
Iyengar, S., Sood, G., & Lelkes, Y. (2012) · Public Opinion Quarterly · doi:10.1093/poq/nfs038 · Cited by 2,748 · see citing works
The Politics of Authoritarian Rule
Svolik, M. W. (2012) · doi:10.1017/cbo9781139176040 · Cited by 2,611 · see citing works
Best practices for missing data management in counseling psychology
Schlomer, G. L., Bauman, S., & Card, N. A. (2010) · Journal of Counseling Psychology · doi:10.1037/a0018082 · Cited by 1,835 · see citing works
What to do about missing values in time series cross- section data
Honaker, J., & King, G. (2010) · American Journal of Political Science · doi:10.1111/j.1540-5907.2010.00447.x · Cited by 966 · see citing works
Self-citationDiscovering the anticancer potential of non-oncology drugs by systematic viability profiling
Corsello, S. M., Nagari, R. T., Spangler, R. D., Rossen, J., Kocak, M., Bryan, J. G., Humeidi, R., Peck, D., Wu, X., Tang, A. A., et al. (2020) · Nature Cancer · doi:10.1038/s43018-019-0018-6 · Cited by 878 · see citing works
Suicide and Friendships Among American Adolescents
Bearman, P. S., & Moody, J. (2004) · American Journal of Public Health · doi:10.2105/ajph.94.1.89 · Cited by 760 · see citing works
Handling Item-Level Missing Data: Simpler Is Just as Good
Parent, M. C. (2013) · The Counseling Psychologist · doi:10.1177/0011000012445176 · Cited by 685 · see citing works
Loneliness over time: The crucial role of social anxiety.
Lim, M. H., Rodebaugh, T. L., Zyphur, M. J., & Gleeson, J. F. M. (2016) · Journal of Abnormal Psychology · doi:10.1037/abn0000162 · Cited by 443 · see citing works
Machine learning and integrative analysis of biomedical big data
Mirza, B., Wang, W., Wang, J., Choi, H., Chung, N. C., & Ping, P. (2019) · Genes · doi:10.3390/genes10020087 · Cited by 380 · see citing works
A randomized trial of online single-session interventions for adolescent depression during COVID-19
Schleider, J. L., Mullarkey, M. C., Fox, K. R., Dobias, M. L., Shroff, A., Hart, E. A., & Roulston, C. A. (2021) · Nature Human Behaviour · doi:10.1038/s41562-021-01235-0 · Cited by 289 · see citing works
Oxytocin receptor gene ( <i>OXTR</i> ) is related to psychological resources
Saphire-Bernstein, S., Way, B. M., Kim, H. S., Sherman, D. K., & Taylor, S. E. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1113137108 · Cited by 262 · see citing works
Muchlinski, D., Siroky, D., He, J., & Kocher, M. (2016) · Political Analysis · doi:10.1093/pan/mpv024 · Cited by 234 · see citing works
Andersson, N., Nava-Aguilera, E., Arosteguí, J., Morales-Perez, A., Suazo-Laguna, H., Legorreta-Soberanis, J., Hernandez-Alvarez, C., Fernandez-Salas, I., Paredes-Solís, S., Balmaseda, A., et al. (2015) · BMJ · doi:10.1136/bmj.h3267 · Cited by 225 · see citing works
Ramos, R., Comas-Cufí, M., Martí-Lluch, R., Balló, E., Ponjoan, A., Alves-Cabratosa, L., Blanch, J., Marrugat, J., Elosua, R., Grau, M., et al. (2018) · BMJ · doi:10.1136/bmj.k3359 · Cited by 215 · see citing works
Duncan, L. G., Cohn, M. A., Chao, M. T., Cook, J. G., Riccobono, J., & Bardacke, N. (2017) · BMC Pregnancy and Childbirth · doi:10.1186/s12884-017-1319-3 · Cited by 224 · see citing works
More reasons to be straightforward: Findings and norms for two scales relevant to social anxiety
Rodebaugh, T. L., Heimberg, R. G., Brown, P. J., Fernandez, K. C., Blanco, C., Schneier, F. R., & Liebowitz, M. R. (2011) · Journal of Anxiety Disorders · doi:10.1016/j.janxdis.2011.02.002 · Cited by 200 · see citing works
Blankers, M., Koeter, M. W. J., & Schippers, G. M. (2010) · Journal of Medical Internet Research · doi:10.2196/jmir.1448 · Cited by 194 · see citing works
Fussell, E., & Lowe, S. R. (2014) · Social Science & Medicine · doi:10.1016/j.socscimed.2014.05.025 · Cited by 190 · see citing works
Missing data methods for arbitrary missingness with small samples
McNeish, D. (2017) · Journal of Applied Statistics · doi:10.1080/02664763.2016.1158246 · Cited by 189 · see citing works
Masters of Disasters? An Empirical Analysis of How Societies Benefit from Corporate Disaster Aid
Ballesteros, L., Useem, M., & Wry, T. (2017) · Academy of Management Journal · doi:10.5465/amj.2015.0765 · Cited by 179 · see citing works
ViEWS: A political violence early-warning system
Hegre, H., Allansson, M., Basedau, M., Colaresi, M., Croicu, M., Fjelde, H., Hoyles, F., Hultman, L., Högbladh, S., Jansen, R., et al. (2019) · Journal of Peace Research · doi:10.1177/0022343319823860 · Cited by 173 · see citing works
Misgivings of medicine: African Americans' skepticism of psychiatric medication
Schnittker, J. (2003) · Journal of Health and Social Behavior · doi:10.2307/1519796 · Cited by 168 · see citing works
Iterative stepwise regression imputation using standard and robust methods
Templ, M., Kowarik, A., & Filzmoser, P. (2011) · Computational Statistics & Data Analysis · doi:10.1016/j.csda.2011.04.012 · Cited by 169 · see citing works
Bishop-Fitzpatrick, L., Mazefsky, C. A., & Eack, S. M. (2018) · Autism · doi:10.1177/1362361317703090 · Cited by 142 · see citing works
Ali, M. K., Chwastiak, L., Poongothai, S., Emmert-Fees, K. M. F., Patel, S. A., Anjana, R. M., Sagar, R., Shankar, R., Sridhar, G. R., Kosuri, M., et al. (2020) · JAMA · doi:10.1001/jama.2020.11747 · Cited by 143 · see citing works
Kemmler, W., Kohl, M., Fröhlich, M., Jakob, F., Engelke, K., von Stengel, S., & Schoene, D. (2020) · Journal of Bone and Mineral Research · doi:10.1002/jbmr.4027 · Cited by 139 · see citing works
Bishop-Fitzpatrick, L., Hong, J., Smith, L. E., Makuch, R. A., Greenberg, J. S., & Mailick, M. R. (2016) · Journal of Autism and Developmental Disorders · doi:10.1007/s10803-016-2816-3 · Cited by 142 · see citing works
Hou, W. K., Law, C. C., Yin, J., & Fu, Y. T. (2010) · Health Psychology · doi:10.1037/a0020809 · Cited by 130 · see citing works
The Incidental Pundit: Who Talks Politics with Whom, and Why?
Minozzi, W., Song, H., Lazer, D. M. J., Neblo, M. A., & Ognyanova, K. (2020) · American Journal of Political Science · doi:10.1111/ajps.12469 · Cited by 123 · see citing works
Acknowledging uncertainty impacts public acceptance of climate scientists’ predictions
Howe, L. C., MacInnis, B., Krosnick, J. A., Markowitz, E. M., & Socolow, R. (2019) · Nature Climate Change · doi:10.1038/s41558-019-0587-5 · Cited by 100 · see citing works
Vanzhula, I. A., Calebs, B., Fewell, L., & Levinson, C. A. (2019) · European Eating Disorders Review · doi:10.1002/erv.2634 · Cited by 101 · see citing works
Sahdra, B. K., Ciarrochi, J., Parker, P., & Scrucca, L. (2016) · Frontiers in Psychology · doi:10.3389/fpsyg.2016.00189 · Cited by 100 · see citing works
Longitudinal hypothalamic-pituitary-adrenal axis trait and state effects in recurrent depression
Lok, A., Mocking, R. J. T., Ruhé, H. G., Visser, I., Koeter, M. W. J., Assies, J., Bockting, C. L. H., Olff, M., & Schene, A. H. (2012) · Psychoneuroendocrinology · doi:10.1016/j.psyneuen.2011.10.005 · Cited by 99 · see citing works
Zona, D., Janssens, I. A., Aubinet, M., Gioli, B., Vicca, S., Fichot, R., & Ceulemans, R. (2013) · Agricultural and Forest Meteorology · doi:10.1016/j.agrformet.2012.10.008 · Cited by 93 · see citing works
Cortisol and α-Amylase Secretion Patterns between and within Depressed and Non-Depressed Individuals
Booij, S. H., Bos, E. H., Bouwmans, M. E. J., van Faassen, M., Kema, I. P., Oldehinkel, A. J., & de Jonge, P. (2015) · PLOS ONE · doi:10.1371/journal.pone.0131002 · Cited by 96 · see citing works
“values, as well as lagged values of cortisol and α-amylase (6 lags) [29].”
BackgroundA Clinician’s Primer for Idiographic Research: Considerations and Recommendations
Piccirillo, M. L., Beck, E. D., & Rodebaugh, T. L. (2019) · Behavior Therapy · doi:10.1016/j.beth.2019.02.002 · Cited by 90 · see citing works
Sahdra, B. K., Ciarrochi, J., Parker, P. D., Basarkod, G., Bradshaw, E. L., & Baer, R. (2017) · European Journal of Personality · doi:10.1002/per.2108 · Cited by 90 · see citing works
Female College Students’ Media Use and Academic Outcomes: Results From a Longitudinal Cohort Study
Walsh, J. L., Fielder, R. L., Carey, K. B., & Carey, M. P. (2013) · Emerging Adulthood · doi:10.1177/2167696813479780 · Cited by 74 · see citing works
Handling Missing Data in the Modeling of Intensive Longitudinal Data
Ji, L., Chow, S.-M., Schermerhorn, A. C., Jacobson, N. C., & Cummings, E. M. (2018) · Structural Equation Modeling: A Multidisciplinary Journal · doi:10.1080/10705511.2017.1417046 · Cited by 74 · see citing works
A computer-based intervention to reduce internalized heterosexism in men
Lin, Y.-J., & Israel, T. (2012) · Journal of Counseling Psychology · doi:10.1037/a0028282 · Cited by 66 · see citing works
The Missing=Smoking Assumption: A Fallacy in Internet-Based Smoking Cessation Trials?
Blankers, M., Smit, E. S., van der Pol, P., de Vries, H., Hoving, C., & van Laar, M. (2015) · Nicotine & Tobacco Research · doi:10.1093/ntr/ntv055 · Cited by 61 · see citing works
Development and validation of a cardiovascular risk prediction model in type 1 diabetes
McGurnaghan, S. J., McKeigue, P. M., Read, S. H., Franzen, S., Svensson, A.-M., Colombo, M., Livingstone, S., Farran, B., Caparrotta, T. M., Blackbourn, L. A. K., et al. (2021) · Diabetologia · doi:10.1007/s00125-021-05478-4 · Cited by 53 · see citing works
Winer, J. R., Lok, R., Weed, L., He, Z., Poston, K. L., Mormino, E. C., & Zeitzer, J. M. (2024) · Alzheimer's Research & Therapy · doi:10.1186/s13195-024-01411-0 · Cited by 44 · see citing works
Ciarrochi, J., Sahdra, B., Marshall, S., Parker, P., & Horwath, C. (2014) · Journal of Contextual Behavioral Science · doi:10.1016/j.jcbs.2014.07.002 · Cited by 42 · see citing works
Monden, R., Rosmalen, J. G. M., Wardenaar, K. J., & Creed, F. (2022) · Psychological Medicine · doi:10.1017/s0033291720001774 · Cited by 39 · see citing works
Wang, J., Dayem Ullah, A. Z., & Chelala, C. (2018) · Nucleic Acids Research · doi:10.1093/nar/gky057 · Cited by 35 · see citing works
Villafaina, S., Collado-Mateo, D., Domínguez-Muñoz, F. J., Fuentes-García, J. P., & Gusi, N. (2019) · Games for Health Journal · doi:10.1089/g4h.2019.0023 · Cited by 38 · see citing works
Sathananthan, N., Dimech-Betancourt, B., Morris, E., Vicendese, D., Knox, L., Gillanders, D., Das Nair, R., & Wong, D. (2022) · Neuropsychological Rehabilitation · doi:10.1080/09602011.2021.1971094 · Cited by 31 · see citing works
“The Amelia II R package was selected due to the statistical validity of its approach in handling time-series data (Honaker et al., 2011; Honaker & King, 2010).”
MethodAceves-Martins, M., Llauradó, E., Tarro, L., Moriña, D., Papell-Garcia, I., Prades-Tena, J., Kettner-Høeberg, H., Puiggròs, F., Arola, L., Davies, A., et al. (2017) · Childhood Obesity · doi:10.1089/chi.2016.0216 · Cited by 29 · see citing works
RetractedThe Politics of Foreign Direct Investment in Authoritarian Regimes
Bastiaens, I. (2016) · International Interactions · doi:10.1080/03050629.2015.1065699 · Cited by 29 · see citing works
Coates, M. M., Kamanda, M., Kintu, A., Arikpo, I., Chauque, A., Mengesha, M. M., Price, A. J., Sifuna, P., Wamukoya, M., Sacoor, C. N., et al. (2019) · Global Health Action · doi:10.1080/16549716.2019.1608013 · Cited by 25 · see citing works
Tkaczyk, M., Lacko, D., Elavsky, S., Tancoš, M., & Smahel, D. (2023) · Computers in Human Behavior · doi:10.1016/j.chb.2023.107946 · Cited by 24 · see citing works
López, J. L., Hernández, S., Urrutia, A., López-Cortés, X. A., Araya, H., & Morales-Salinas, L. (2021) · Computers & Geosciences · doi:10.1016/j.cageo.2021.104794 · Cited by 22 · see citing works
Henderson, C., Dixon, S., Bauer, A., Knapp, M., Morrell, C. J., Slade, P., Walters, S. J., & Brugha, T. (2019) · Psychological Medicine · doi:10.1017/s0033291718001940 · Cited by 21 · see citing works
Predictors of the occurrence of smoking discontinuation in novice adolescent smokers
O'Loughlin, J. L., Sylvestre, M.-P., Dugas, E. N., & Karp, I. (2014) · Cancer Epidemiology, Biomarkers & Prevention · doi:10.1158/1055-9965.epi-13-0869 · Cited by 17 · see citing works
Jamison, R. N., Xu, X., Wan, L., Edwards, R. R., & Ross, E. L. (2019) · The Journal of Pain · doi:10.1016/j.jpain.2018.09.005 · Cited by 16 · see citing works
Harnas, S. J., Knoop, H., Booij, S. H., & Braamse, A. M. J. (2021) · Internet Interventions · doi:10.1016/j.invent.2021.100430 · Cited by 12 · see citing works
Evaluation of chromatin accessibility in prefrontal cortex of schizophrenia cases and controls
Bryois, J., Garrett, M. E., Song, L., Safi, A., Giusti-Rodriguez, P., Johnson, G. D., Demur, A. B., Fullard, J. F., Roussos, P., Sklar, P., et al. (2017) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/141986 · Cited by 7 · see citing works
Block, K., olsson, M. I. T., Schmader, T., van Laar, C., Martiny, S. E., Schuster, C., Van Grootel, S., Meeussen, L., & Croft, A. (2022) · doi:10.31234/osf.io/k6g5d · Cited by 7 · see citing works
Profe, W. B., Wild, L. G., & Tredoux, C. (2021) · Journal of Social and Personal Relationships · doi:10.1177/02654075211000433 · Cited by 7 · see citing works
ACT with Pain : measurement, efficacy and mechanisms of Acceptance & Commitment Therapy
Trompetter, H. (2014) · doi:10.3990/1.9789036537087 · Cited by 4 · see citing works
Weathering the Storm: Supernatural Belief and Cooperation in an Insecure World
McNamara, R. A. (2020) · Journal for the Study of Religion, Nature and Culture · doi:10.1558/jsrnc.38538 · Cited by 4 · see citing works
- Authors
- Honaker, J., King, G., & Blackwell, M.
- Venue
- Journal of Statistical Software
- Publisher
- Foundation for Open Access Statistic
- Published
- 2011
- Volume
- 45
- Issue
- 7
- ISSN
- 1548-7660 (ISSN-L)
- OpenAlex
- W1822348759
- Cited by
- 2,552
- References
- 2
- Citations by year
- 2026: 78 · 2025: 119 · 2024: 136 · 2023: 144 · 2022: 155 · 2021: 238 · 2020: 221 · 2019: 212 · 2018: 223 · 2017: 174 · 2016: 151 · 2015: 159 · 2014: 150 · 2013: 109 · 2012: 66
- FWCI
- 103.98
- Type
- journal article
- Language
- en
- Open access
- diamond
- doi.org
- Licence
- cc-by
- Locations
- Journal of Statistical Software (publishedVersion, cc-by)
- RePEc: Research Papers in Economics (submittedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- Topics
- Physical Sciences › Mathematics › Statistics and Probability › Statistical Methods and Bayesian Inference
- Physical Sciences › Computer Science › Artificial Intelligence › Data Analysis with R
- Physical Sciences › Mathematics › Statistics and Probability › Markov Chains and Monte Carlo Methods
- Keywords
- multiple imputation, missing data, prior distributions, time series imputation, cross-sectional data, graphical diagnostics, R package
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review