R package citation, R package reverse dependencies, R package scholars, install an r package from GitHub hy is package acceptance pending why is package undeliverable amazon why is package on hold dhl tour packages why in r package r and r package full form why is r free why r is bad which r package to install which r package has which r package which r package version which r package readxl which r package ggplot which r package fread which r package license where is package.json where is package-lock.json where is package.swift where is package explorer in eclipse where is package where is package manager unity where is package installer android where is package manager console in visual studio who r package which r package to install which r package version who is package who is package deal who is package design r and r package full form r and r package meaning what r package has what package r what is package in java what is package what is package-lock.json what is package in python what is package.json what is package installer do r package can't install r packages r can't find package r can't load package can't load xlsx package r can't install psych package r can't install sf package r Write if else in NONMEM pk pd
TemporalGSSA
View on CRAN: Click
here
Download and install TemporalGSSA package within the R console
Install from CRAN:
install.packages("TemporalGSSA")
Install from Github:
library("remotes")
install_github("cran/TemporalGSSA")
Install by package version:
library("remotes")
install_version("TemporalGSSA", "1.0.1")
Attach the package and use:
library("TemporalGSSA")
Maintained by
Siddhartha Kundu
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2022-03-02
Latest Update: 2022-10-09
Description:
The data that is generated from independent and consecutive 'GillespieSSA' runs for a generic biochemical network is formatted as rows and constitutes an observation. The first column of each row is the computed timestep for each run. Subsequent columns are used for the number of molecules of each participating molecular species or "metabolite" of a generic biochemical network. In this way 'TemporalGSSA', is a wrapper for the R-package 'GillespieSSA'. The number of observations must be at least 30. This will generate data that is statistically significant. 'TemporalGSSA', transforms this raw data into a simulation time-dependent and metabolite-specific trial. Each such trial is defined as a set of linear models (n >= 30) between a timestep and number of molecules for a metabolite. Each linear model is characterized by coefficients such as the slope, arbitrary constant, etc. The user must enter an integer from 1-4. These specify the statistical modality utilized to compute a representative timestep (mean, median, random, all). These arguments are mandatory and will be checked. Whilst, the numeric indicator "0" indicates suitability, "1" prompts the user to revise and re-enter their data. An optional logical argument controls the output to the console with the default being "TRUE" (curtailed) whilst "FALSE" (verbose). The coefficients of each linear model are averaged (mean slope, mean constant) and are incorporated into a metabolite-specific linear regression model as the dependent variable. The independent variable is the representative timestep chosen previously. The generated data is the imputed molecule number for an in silico experiment with (n >=30) observations. These steps can be replicated with multiple set of observations. The generated "technical replicates" can be statistically evaluated (mean, standard deviation) and will constitute simulation time-dependent molecules for each metabolite. For SSA-generated datasets with varying simulation times 'TemporalGSSA' will generate a simulation time-dependent trajectory for each metabolite of the biochemical network under study. The relevant publication with the mathematical derivation of the algorithm is (2022, Journal of Bioinformatics and Computational Biology) <doi:10.1142/S0219720022500184>. The algorithm has been deployed in the following publications (2021, Heliyon) <doi:10.1016/j.heliyon.2021.e07466> and (2016, Journal of Theoretical Biology) <doi:10.1016/j.jtbi.2016.07.002>.
How to cite:
Siddhartha Kundu (2022). TemporalGSSA: Outputs Temporal Profile of Molecules from Stochastic Simulation Algorithm Generated Datasets. R package version 1.0.1, https://cran.r-project.org/web/packages/TemporalGSSA. Accessed 22 Dec. 2024.
Previous versions and publish date:
1.0.0 (2022-03-02 09:50)
Other packages that cited TemporalGSSA R package
View TemporalGSSA citation profile
Other R packages that TemporalGSSA depends,
imports, suggests or enhances
Complete documentation for TemporalGSSA
Functions, R codes and Examples using
the TemporalGSSA R package
Some associated functions: calculate_TemporalGSSA . check_TemporalGSSA .
Some associated R codes: calculate_TemporalGSSA.R . Full TemporalGSSA package functions and examples
Downloads during the last 30 days
Get rewarded with contribution points by
helping add
Reviews / comments / questions /suggestions ↴↴↴
Today's Hot Picks in Authors and Packages
quickcode
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Obinna Obianom (view profile)
tropAlgebra
It includes functions like tropical addition, tropical multiplication for vectors and matrices. In t ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Muhammad Kashif Hanif (view profile)
composits
A compositional multivariate and univariate time series outlier ensemble.It uses the four R packages ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Sevvandi Kandanaarachchi (view profile)
wordspace
An interactive laboratory for research on distributional semantic models ('DSM', see < ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Stephanie Evert (view profile)
Rfast2
A collection of fast statistical and utility functions for data analysis. Functions for regression, ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Manos Papadakis (view profile)
dmlalg
Implementation of double machine learning (DML) algorithms in R,
based on Emmenegger and Buehlmann ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Corinne Emmenegger (view profile)