Showing 21 of total 21 results (show query)
ss3sim
ss3sim:Fisheries Stock Assessment Simulation Testing with Stock Synthesis
A framework for fisheries stock assessment simulation testing with Stock Synthesis (SS3) as described in Anderson et al. (2014) <doi:10.1371/journal.pone.0092725>.
Maintained by Kelli F. Johnson. Last updated 5 months ago.
fisheriessimulationstock-synthesis
10.9 match 39 stars 8.89 score 149 scripts
arni-magnusson
scape:Statistical Catch-at-Age Plotting Environment
Import, plot, and diagnose results from statistical catch-at-age models, used in fisheries stock assessment.
Maintained by Arni Magnusson. Last updated 5 months ago.
12.0 match 5.72 score 35 scripts
gnelson12
fishmethods:Fishery Science Methods and Models
Functions for applying a wide range of fisheries stock assessment methods.
Maintained by Gary A. Nelson. Last updated 1 months ago.
13.1 match 5 stars 4.12 score 136 scripts 1 dependents
verbal-autopsy-software
InSilicoVA:Probabilistic Verbal Autopsy Coding with 'InSilicoVA' Algorithm
Computes individual causes of death and population cause-specific mortality fractions using the 'InSilicoVA' algorithm from McCormick et al. (2016) <DOI:10.1080/01621459.2016.1152191>. It uses data derived from verbal autopsy (VA) interviews, in a format similar to the input of the widely used 'InterVA' method. This package provides general model fitting and customization for 'InSilicoVA' algorithm and basic graphical visualization of the output.
Maintained by Zehang Richard Li. Last updated 1 months ago.
9.1 match 3 stars 5.67 score 35 scripts 1 dependents
hojsgaard
doBy:Groupwise Statistics, LSmeans, Linear Estimates, Utilities
Utility package containing: 1) Facilities for working with grouped data: 'do' something to data stratified 'by' some variables. 2) LSmeans (least-squares means), general linear estimates. 3) Restrict functions to a smaller domain. 4) Miscellaneous other utilities.
Maintained by Søren Højsgaard. Last updated 4 days ago.
3.4 match 1 stars 14.94 score 3.2k scripts 939 dependents
oxfordihtm
codeditr:Implementing Cause-of-Death Data Checks Based on the WHO CoDEdit Tool
The World Health Organization's CoDEdit electronic tool is intended to help producers of cause-of-death statistics in strengthening their capacity to perform routine checks on their data. This package ports the original tool built using Microsoft Access into R so as to leverage the utility and function of the original tool into a usable application program interface that can be used for building more universal tools or for creating programmatic scientific workflows aimed at routine, automated, and large-scale monitoring of cause-of-death data.
Maintained by Ernest Guevarra. Last updated 4 months ago.
11.0 match 3 stars 4.65 score 6 scripts
xjsun1221
tinyarray:Expression Data Analysis and Visualization
The Gene Expression Omnibus (<https://www.ncbi.nlm.nih.gov/geo/>) and The Cancer Genome Atlas (<https://portal.gdc.cancer.gov/>) are widely used medical public databases. Our platform integrates routine analysis and visualization tools for expression data to provide concise and intuitive data analysis and presentation.
Maintained by Xiaojie Sun. Last updated 9 months ago.
6.6 match 91 stars 6.67 score 138 scripts
fishr-core-team
FSA:Simple Fisheries Stock Assessment Methods
A variety of simple fish stock assessment methods.
Maintained by Derek H. Ogle. Last updated 2 months ago.
fishfisheriesfisheries-managementfisheries-stock-assessmentpopulation-dynamicsstock-assessment
3.4 match 68 stars 11.08 score 1.7k scripts 6 dependents
flr
FLfse:Fisheries Sampling Evaluation In FLR
Fisheries Sampling Evaluation in FLR. A package to interface betwen the SAM stock assessments and FLR, and aid the inclusion of SAM into Management Strategy Evaluation (MSE), including the set up of operating models mimicking SAM.
Maintained by Simon Fischer. Last updated 3 years ago.
12.0 match 2 stars 2.71 score 51 scripts
mages
ChainLadder:Statistical Methods and Models for Claims Reserving in General Insurance
Various statistical methods and models which are typically used for the estimation of outstanding claims reserves in general insurance, including those to estimate the claims development result as required under Solvency II.
Maintained by Markus Gesmann. Last updated 1 months ago.
3.1 match 82 stars 10.04 score 196 scripts 2 dependents
bioc
BioTIP:BioTIP: An R package for characterization of Biological Tipping-Point
Adopting tipping-point theory to transcriptome profiles to unravel disease regulatory trajectory.
Maintained by Yuxi (Jennifer) Sun. Last updated 5 months ago.
sequencingrnaseqgeneexpressiontranscriptionsoftware
4.5 match 18 stars 6.84 score 37 scriptsverbal-autopsy-software
InterVA4:Replicate and Analyse 'InterVA4'
Provides an R version of the 'InterVA4' software (<http://www.interva.net>) for coding cause of death from verbal autopsies. It also provides simple graphical representation of individual and population level statistics.
Maintained by Zehang Richard Li. Last updated 3 years ago.
5.4 match 4.29 score 13 scripts 1 dependents
middleton-lab
abd:The Analysis of Biological Data
The abd package contains data sets and sample code for The Analysis of Biological Data by Michael Whitlock and Dolph Schluter (2009; Roberts & Company Publishers).
Maintained by Kevin M. Middleton. Last updated 11 months ago.
4.0 match 6 stars 5.53 score 182 scripts 1 dependents
blue-matter
SAMtool:Stock Assessment Methods Toolkit
Simulation tools for closed-loop simulation are provided for the 'MSEtool' operating model to inform data-rich fisheries. 'SAMtool' provides a conditioning model, assessment models of varying complexity with standardized reporting, model-based management procedures, and diagnostic tools for evaluating assessments inside closed-loop simulation.
Maintained by Quang Huynh. Last updated 20 days ago.
3.3 match 3 stars 6.49 score 36 scripts 1 dependents
duncanobrien
EWSmethods:Forecasting Tipping Points at the Community Level
Rolling and expanding window approaches to assessing abundance based early warning signals, non-equilibrium resilience measures, and machine learning. See Dakos et al. (2012) <doi:10.1371/journal.pone.0041010>, Deb et al. (2022) <doi:10.1098/rsos.211475>, Drake and Griffen (2010) <doi:10.1038/nature09389>, Ushio et al. (2018) <doi:10.1038/nature25504> and Weinans et al. (2021) <doi:10.1038/s41598-021-87839-y> for methodological details. Graphical presentation of the outputs are also provided for clear and publishable figures. Visit the 'EWSmethods' website for more information, and tutorials.
Maintained by Duncan OBrien. Last updated 7 months ago.
3.8 match 8 stars 5.51 score 20 scripts
noaa-nwfsc
zoid:Bayesian Zero-and-One Inflated Dirichlet Regression Modelling
Fits Dirichlet regression and zero-and-one inflated Dirichlet regression with Bayesian methods implemented in Stan. These models are sometimes referred to as trinomial mixture models; covariates and overdispersion can optionally be included.
Maintained by Eric J. Ward. Last updated 11 months ago.
3.1 match 8 stars 5.89 score 12 scripts
jarathomas
InterVA5:Replicate and Analyse 'InterVA5'
Provides an R version of the 'InterVA5' software (<http://www.byass.uk/interva/>) for coding cause of death from verbal autopsies. It also provides simple graphical representation of individual and population level statistics.
Maintained by Jason Thomas. Last updated 4 years ago.
5.4 match 2.38 score 20 scripts 2 dependents
dgbonett
statpsych:Statistical Methods for Psychologists
Implements confidence interval and sample size methods that are especially useful in psychological research. The methods can be applied in 1-group, 2-group, paired-samples, and multiple-group designs and to a variety of parameters including means, medians, proportions, slopes, standardized mean differences, standardized linear contrasts of means, plus several measures of correlation and association. Confidence interval and sample size functions are given for single parameters as well as differences, ratios, and linear contrasts of parameters. The sample size functions can be used to approximate the sample size needed to estimate a parameter or function of parameters with desired confidence interval precision or to perform a variety of hypothesis tests (directional two-sided, equivalence, superiority, noninferiority) with desired power. For details see: Statistical Methods for Psychologists, Volumes 1 – 4, <https://dgbonett.sites.ucsc.edu/>.
Maintained by Douglas G. Bonett. Last updated 3 months ago.
2.3 match 6 stars 4.83 score 15 scripts 1 dependents
radivot
SEERaBomb:SEER and Atomic Bomb Survivor Data Analysis Tools
Creates SEER (Surveillance, Epidemiology and End Results) and A-bomb data binaries from ASCII sources and provides tools for estimating SEER second cancer risks. Methods are described in <doi:10.1038/leu.2015.258>.
Maintained by Tomas Radivoyevitch. Last updated 5 years ago.
2.0 match 2.85 score 176 scripts
cran
DDM:Death Registration Coverage Estimation
A set of three two-census methods to the estimate the degree of death registration coverage for a population. Implemented methods include the Generalized Growth Balance method (GGB), the Synthetic Extinct Generation method (SEG), and a hybrid of the two, GGB-SEG. Each method offers automatic estimation, but users may also specify exact parameters or use a graphical interface to guess parameters in the traditional way if desired.
Maintained by Tim Riffe. Last updated 8 years ago.
1.8 match 2.00 score