Showing 16 of total 16 results (show query)
kkholst
lava:Latent Variable Models
A general implementation of Structural Equation Models with latent variables (MLE, 2SLS, and composite likelihood estimators) with both continuous, censored, and ordinal outcomes (Holst and Budtz-Joergensen (2013) <doi:10.1007/s00180-012-0344-y>). Mixture latent variable models and non-linear latent variable models (Holst and Budtz-Joergensen (2020) <doi:10.1093/biostatistics/kxy082>). The package also provides methods for graph exploration (d-separation, back-door criterion), simulation of general non-linear latent variable models, and estimation of influence functions for a broad range of statistical models.
Maintained by Klaus K. Holst. Last updated 3 months ago.
latent-variable-modelssimulationstatisticsstructural-equation-models
33 stars 12.87 score 610 scripts 478 dependents
bioc
TRONCO:TRONCO, an R package for TRanslational ONCOlogy
The TRONCO (TRanslational ONCOlogy) R package collects algorithms to infer progression models via the approach of Suppes-Bayes Causal Network, both from an ensemble of tumors (cross-sectional samples) and within an individual patient (multi-region or single-cell samples). The package provides parallel implementation of algorithms that process binary matrices where each row represents a tumor sample and each column a single-nucleotide or a structural variant driving the progression; a 0/1 value models the absence/presence of that alteration in the sample. The tool can import data from plain, MAF or GISTIC format files, and can fetch it from the cBioPortal for cancer genomics. Functions for data manipulation and visualization are provided, as well as functions to import/export such data to other bioinformatics tools for, e.g, clustering or detection of mutually exclusive alterations. Inferred models can be visualized and tested for their confidence via bootstrap and cross-validation. TRONCO is used for the implementation of the Pipeline for Cancer Inference (PICNIC).
Maintained by Luca De Sano. Last updated 4 days ago.
biomedicalinformaticsbayesiangraphandnetworksomaticmutationnetworkinferencenetworkclusteringdataimportsinglecellimmunooncologyalgorithmscancer-inferencetumors
30 stars 8.35 score 38 scripts
hughparsonage
hutils:Miscellaneous R Functions and Aliases
Provides utility functions for, and drawing on, the 'data.table' package. The package also collates useful miscellaneous functions extending base R not available elsewhere. The name is a portmanteau of 'utils' and the author.
Maintained by Hugh Parsonage. Last updated 2 years ago.
12 stars 7.76 score 219 scripts 8 dependents
mayamathur
EValue:Sensitivity Analyses for Unmeasured Confounding and Other Biases in Observational Studies and Meta-Analyses
Conducts sensitivity analyses for unmeasured confounding, selection bias, and measurement error (individually or in combination; VanderWeele & Ding (2017) <doi:10.7326/M16-2607>; Smith & VanderWeele (2019) <doi:10.1097/EDE.0000000000001032>; VanderWeele & Li (2019) <doi:10.1093/aje/kwz133>; Smith & VanderWeele (2021) <arXiv:2005.02908>). Also conducts sensitivity analyses for unmeasured confounding in meta-analyses (Mathur & VanderWeele (2020a) <doi:10.1080/01621459.2018.1529598>; Mathur & VanderWeele (2020b) <doi:10.1097/EDE.0000000000001180>) and for additive measures of effect modification (Mathur et al., under review).
Maintained by Maya B. Mathur. Last updated 3 years ago.
3 stars 6.35 score 99 scripts 1 dependents
allanvc
mRpostman:An IMAP Client for R
An easy-to-use IMAP client that provides tools for message searching, selective fetching of message attributes, mailbox management, attachment extraction, and several other IMAP features, paving the way for e-mail data analysis in R.
Maintained by Allan Quadros. Last updated 6 months ago.
31 stars 5.92 score 18 scripts
jmbarbone
mark:Miscellaneous, Analytic R Kernels
Miscellaneous functions and wrappers for development in other packages created, maintained by Jordan Mark Barbone.
Maintained by Jordan Mark Barbone. Last updated 2 months ago.
6 stars 4.95 score 9 scripts
giampmarra
GJRM:Generalised Joint Regression Modelling
Routines for fitting various joint (and univariate) regression models, with several types of covariate effects, in the presence of equations' errors association, endogeneity, non-random sample selection or partial observability.
Maintained by Giampiero Marra. Last updated 5 months ago.
4 stars 4.04 score 67 scripts 5 dependents
leapigufpb
FuzzyClass:Fuzzy and Non-Fuzzy Classifiers
It provides classifiers which can be used for discrete variables and for continuous variables based on the Naive Bayes and Fuzzy Naive Bayes hypothesis. Those methods were developed by researchers belong to the 'Laboratory of Technologies for Virtual Teaching and Statistics (LabTEVE)' and 'Laboratory of Applied Statistics to Image Processing and Geoprocessing (LEAPIG)' at 'Federal University of Paraiba, Brazil'. They considered some statistical distributions and their papers were published in the scientific literature, as for instance, the Gaussian classifier using fuzzy parameters, proposed by 'Moraes, Ferreira and Machado' (2021) <doi:10.1007/s40815-020-00936-4>.
Maintained by Jodavid Ferreira. Last updated 5 months ago.
1 stars 4.00 score 10 scripts
kasperwelbers
rsyntax:Extract Semantic Relations from Text by Querying and Reshaping Syntax
Various functions for querying and reshaping dependency trees, as for instance created with the 'spacyr' or 'udpipe' packages. This enables the automatic extraction of useful semantic relations from texts, such as quotes (who said what) and clauses (who did what). Method proposed in Van Atteveldt et al. (2017) <doi:10.1017/pan.2016.12>.
Maintained by Kasper Welbers. Last updated 3 years ago.
3.19 score 19 scripts 4 dependents
giabaio
bmhe:This Package Creates a Set of Functions Useful for Bayesian modelling
A set of utility functions that can be used to post-process BUGS or JAGS objects as well as other to facilitate various Bayesian modelling activities (including in HTA).
Maintained by Gianluca Baio. Last updated 25 days ago.
bayesian-statisticsbugscost-effectiveness-analysisjagstidyverse
2 stars 3.00 score 7 scripts
jimbrig
jimstools:Tools for R
What the package does (one paragraph).
Maintained by Jimmy Briggs. Last updated 3 years ago.
2 stars 3.00 score 2 scripts
digemall
bsearchtools:Binary Search Tools
Exposes the binary search functions of the C++ standard library (std::lower_bound, std::upper_bound) plus other convenience functions, allowing faster lookups on sorted vectors.
Maintained by Marco Giuliano. Last updated 2 years ago.
2.88 score 15 scriptshughparsonage
heims:Decode and Validate HEIMS Data from Department of Education, Australia
Decode elements of the Australian Higher Education Information Management System (HEIMS) data for clarity and performance. HEIMS is the record system of the Department of Education, Australia to record enrolments and completions in Australia's higher education system, as well as a range of relevant information. For more information, including the source of the data dictionary, see <http://heimshelp.education.gov.au/sites/heimshelp/dictionary/pages/data-element-dictionary>.
Maintained by Hugh Parsonage. Last updated 7 years ago.
2.70 score 8 scripts
cran
sasLM:'SAS' Linear Model
This is a core implementation of 'SAS' procedures for linear models - GLM, REG, ANOVA, TTEST, FREQ, and UNIVARIATE. Some R packages provide type II and type III SS. However, the results of nested and complex designs are often different from those of 'SAS.' Different results does not necessarily mean incorrectness. However, many wants the same results to SAS. This package aims to achieve that. Reference: Littell RC, Stroup WW, Freund RJ (2002, ISBN:0-471-22174-0).
Maintained by Kyun-Seop Bae. Last updated 6 months ago.
2.55 score 3 dependents
anosckin
ExcelFunctionsR:Imports Excel Functions to R
Implements 'Excel' functions in 'R' for your calculation simplicity.You can use most of the aggregate functions, addressing functions,logical functions and text functions. Helps you a ton in learning how 'R' works as some 'Excel' users might be struggling with the program.
Maintained by Nika Salia. Last updated 5 years ago.
1.40 score 25 scriptscran
TrendInTrend:Odds Ratio Estimation and Power Calculation for the Trend in Trend Model
Estimation of causal odds ratio and power calculation given trends in exposure prevalence and outcome frequencies of stratified data.
Maintained by Ashkan Ertefaie. Last updated 5 years ago.
1 stars 1.00 score