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bioc

flowCore:flowCore: Basic structures for flow cytometry data

Provides S4 data structures and basic functions to deal with flow cytometry data.

Maintained by Mike Jiang. Last updated 5 months ago.

immunooncologyinfrastructureflowcytometrycellbasedassayscpp

10.17 score 1.7k scripts 59 dependents

femiguez

nlraa:Nonlinear Regression for Agricultural Applications

Additional nonlinear regression functions using self-start (SS) algorithms. One of the functions is the Beta growth function proposed by Yin et al. (2003) <doi:10.1093/aob/mcg029>. There are several other functions with breakpoints (e.g. linear-plateau, plateau-linear, exponential-plateau, plateau-exponential, quadratic-plateau, plateau-quadratic and bilinear), a non-rectangular hyperbola and a bell-shaped curve. Twenty eight (28) new self-start (SS) functions in total. This package also supports the publication 'Nonlinear regression Models and applications in agricultural research' by Archontoulis and Miguez (2015) <doi:10.2134/agronj2012.0506>, a book chapter with similar material <doi:10.2134/appliedstatistics.2016.0003.c15> and a publication by Oddi et. al. (2019) in Ecology and Evolution <doi:10.1002/ece3.5543>. The function 'nlsLMList' uses 'nlsLM' for fitting, but it is otherwise almost identical to 'nlme::nlsList'.In addition, this release of the package provides functions for conducting simulations for 'nlme' and 'gnls' objects as well as bootstrapping. These functions are intended to work with the modeling framework of the 'nlme' package. It also provides four vignettes with extended examples.

Maintained by Fernando Miguez. Last updated 11 months ago.

agriculturalecologynonlinear-mixed-modelsnonlinear-regression

23 stars 8.19 score 112 scripts 2 dependents

youyifong

kyotil:Utility Functions for Statistical Analysis Report Generation and Monte Carlo Studies

Helper functions for creating formatted summary of regression models, writing publication-ready tables to latex files, and running Monte Carlo experiments.

Maintained by Youyi Fong. Last updated 21 days ago.

openblas

7.87 score 236 scripts 7 dependents

mcconvil

mase:Model-Assisted Survey Estimators

A set of model-assisted survey estimators and corresponding variance estimators for single stage, unequal probability, without replacement sampling designs. All of the estimators can be written as a generalized regression estimator with the Horvitz-Thompson, ratio, post-stratified, and regression estimators summarized by Sarndal et al. (1992, ISBN:978-0-387-40620-6). Two of the estimators employ a statistical learning model as the assisting model: the elastic net regression estimator, which is an extension of the lasso regression estimator given by McConville et al. (2017) <doi:10.1093/jssam/smw041>, and the regression tree estimator described in McConville and Toth (2017) <arXiv:1712.05708>. The variance estimators which approximate the joint inclusion probabilities can be found in Berger and Tille (2009) <doi:10.1016/S0169-7161(08)00002-3> and the bootstrap variance estimator is presented in Mashreghi et al. (2016) <doi:10.1214/16-SS113>.

Maintained by Kelly McConville. Last updated 8 months ago.

cpp

8 stars 6.55 score 42 scripts 2 dependents

bioc

CNAnorm:A normalization method for Copy Number Aberration in cancer samples

Performs ratio, GC content correction and normalization of data obtained using low coverage (one read every 100-10,000 bp) high troughput sequencing. It performs a "discrete" normalization looking for the ploidy of the genome. It will also provide tumour content if at least two ploidy states can be found.

Maintained by Stefano Berri. Last updated 5 months ago.

copynumbervariationsequencingcoveragenormalizationwholegenomednaseqgenomicvariationfortran

4.30 score 6 scripts

rossellhayes

nombre:Number Names

Converts numeric vectors to character vectors of English number names. Provides conversion to cardinals, ordinals, numerators, and denominators. Supports negative and non-integer numbers.

Maintained by Alexander Rossell Hayes. Last updated 3 years ago.

natural-language

13 stars 3.81 score 4 scripts

cran

randomizeR:Randomization for Clinical Trials

This tool enables the user to choose a randomization procedure based on sound scientific criteria. It comprises the generation of randomization sequences as well the assessment of randomization procedures based on carefully selected criteria. Furthermore, 'randomizeR' provides a function for the comparison of randomization procedures.

Maintained by Ralf-Dieter Hilgers. Last updated 2 years ago.

2 stars 3.38 score 1 dependents

cran

hydropeak:Detect and Characterize Sub-Daily Flow Fluctuations

An important environmental impact on running water ecosystems is caused by hydropeaking - the discontinuous release of turbine water because of peaks of energy demand. An event-based algorithm is implemented to detect flow fluctuations referring to increase events (IC) and decrease events (DC). For each event, a set of parameters related to the fluctuation intensity is calculated. The framework is introduced in Greimel et al. (2016) "A method to detect and characterize sub-daily flow fluctuations" <doi:10.1002/hyp.10773> and can be used to identify different fluctuation types according to the potential source: e.g., sub-daily flow fluctuations caused by hydropeaking, rainfall, or snow and glacier melt. This is a companion to the package 'hydroroute', which is used to detect and follow hydropower plant-specific hydropeaking waves at the sub-catchment scale and to describe how hydropeaking flow parameters change along the longitudinal flow path as proposed and validated in Greimel et al. (2022).

Maintained by Bettina Grün. Last updated 2 years ago.

2.48 score 1 dependents

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