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
SeqNet
View on CRAN: Click
here
Download and install SeqNet package within the R console
Install from CRAN:
install.packages("SeqNet")
Install from Github:
library("remotes")
install_github("cran/SeqNet")
Install by package version:
library("remotes")
install_version("SeqNet", "1.1.3")
Attach the package and use:
library("SeqNet")
Maintained by
Tyler Grimes
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-06-24
Latest Update: 2021-07-09
Description:
Methods to generate random gene-gene association networks and simulate RNA-seq data from them, as described in Grimes and Datta (2021) . Includes functions to generate random networks of any size and perturb them to obtain differential networks. Network objects are built from individual, overlapping modules that represent pathways. The resulting network has various topological properties that are characteristic of gene regulatory networks. RNA-seq data can be generated such that the association among gene expression profiles reflect the underlying network. A reference RNA-seq dataset can be provided to model realistic marginal distributions. Plotting functions are available to visualize a network, compare two networks, and compare the expression of two genes across multiple networks.
How to cite:
Tyler Grimes (2019). SeqNet: Generate RNA-Seq Data from Gene-Gene Association Networks. R package version 1.1.3, https://cran.r-project.org/web/packages/SeqNet
Other packages that cited SeqNet R package
View SeqNet citation profile
Other R packages that SeqNet depends,
imports, suggests or enhances
Functions, R codes and Examples using
the SeqNet R package
Some associated functions: add_modules_to_network . add_random_module_to_network . all_networks_contain_same_modules . all_networks_contain_same_nodes . as_single_module . check_adjacency_cpp . components_in_adjacency . connect_module_structure . create_cytoscape_file . create_empty_module . create_empty_network . create_module_from_adjacency_matrix . create_module_from_association_matrix . create_modules_for_network . create_network_from_adjacency_matrix . create_network_from_association_matrix . create_network_from_modules . dzinb . ecdf_cpp . edges_from_adjacency_cpp . est_params_from_reference . gen_gaussian . gen_partial_correlations . gen_rnaseq . gen_zinb . get_adjacency_matrix.default . get_adjacency_matrix.matrix . get_adjacency_matrix.network . get_adjacency_matrix.network_module . get_adjacency_matrix . get_association_matrix.default . get_association_matrix.matrix . get_association_matrix.network . get_association_matrix.network_module . get_association_matrix . get_degree_distribution . get_edge_weights_from_module . get_layout_for_modules . get_network_arguments . get_network_characteristics . get_network_modules . get_node_names.default . get_node_names.matrix . get_node_names.network . get_node_names.network_module . get_node_names . get_sigma.default . get_sigma.matrix . get_sigma.network . get_sigma.network_module . get_sigma . get_summary_for_node . heatmap_network . is_PD . is_symmetric_cpp . is_weighted.default . is_weighted.matrix . is_weighted.network . is_weighted.network_module . is_weighted . perturb_network . plot.network . plot.network_module . plot.network_plot . plot_gene_pair . plot_modules . plot_network . plot_network_diff . plot_network_sim . print.network . print.network_module . print.network_plot . pzinb . qzinb . random_module . random_module_structure . random_network . reference . remove_connections.default . remove_connections.matrix . remove_connections.network . remove_connections.network_module . remove_connections . remove_connections_to_node.default . remove_connections_to_node.matrix . remove_connections_to_node.network . remove_connections_to_node.network_module . remove_connections_to_node . remove_weights.default . remove_weights.matrix . remove_weights.network . remove_weights.network_module . remove_weights . replace_module_in_network . rewire_connections.default . rewire_connections.matrix . rewire_connections.network . rewire_connections.network_module . rewire_connections . rewire_connections_to_node.default . rewire_connections_to_node.matrix . rewire_connections_to_node.network . rewire_connections_to_node.network_module . rewire_connections_to_node . ring_lattice_cpp . rzinb . sample_link_nodes . sample_module_nodes . sample_reference_data . set_module_edges . set_module_name . set_module_weights . set_node_names . update_module_with_random_weights .
Some associated R codes: RcppExports.R . cytoscape.R . data.R . gen_rnaseq.R . gen_zinb.R . generics.R . ggm.R . imports.R . misc.R . modules.R . networks.R . plotting.R . reference.R . Full SeqNet 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
MatrixEQTL
Matrix eQTL is designed for fast eQTL analysis on large datasets.
Matrix eQTL can test for associat ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Andrey A Shabalin (view profile)
CompoundEvents
Tools for extracting occurrences, assessing potential driving factors, predicting occurrences, and q ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Zengchao Hao (view profile)
gclus
Orders panels in scatterplot matrices and parallel coordinate
displays by some merit index. Package ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Catherine Hurley (view profile)
stagePop
Provides facilities to implement and run population models of stage-structured species... ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: David Nutter (view profile)
multiocc
Spatio-temporal multivariate occupancy models can handle multiple species in occupancy models. This ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Staci Hepler (view profile)
nextGenShinyApps
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Obinna Obianom (view profile)
22,114
R Packages
188,080
Dependencies
55,244
Author Associations
22,115
Publication Badges
© Copyright 2022 - present. All right reserved, rpkg.net. Contact Us / Suggestions / Concerns