Collection of Rudimentary Bioinformatics Tools
The best subnetworks
Extract a column from a matrix
Corbi - Collection of Rudimentary Bioinformatics Tools
Extend subnetworks from smaller subnetworks
Calculate adjusted degree differences for given network
Construct differential expression ratio network
Calculate expression ratio distribution
Calculate expression ratio distribution
Calculate expression ratio variances
Calculate shortest distances of unweighted network
All subnetworks of limited size
Cohen's kappa score
Simulate differentially expressed gene data (Gaussian)
Simulate differentially expressed gene data (Negative binomial)
Simulate differentially expressed gene pattern
MarkRank
Network alignment method based on conditional random fields
Network querying method based on conditional random fields
netDEG: Differentially expressed gene identification method
Calculate netDEG p-values
The number of non-zero values of a submatrix
Calculate combined p-value
The Multivariate Hypergeometric Distribution
The Multinomial Distribution
Read network information from text file
The Multivariate Hypergeometric Distribution
Simulate dropout expression data
Simulate dropout expression data
Simulate sample groups from given samples with labels
Extract a submatrix from a matrix
Calculate normalization factors for URG method
Normalize using given factors
Write network information to text file
Provides a bundle of basic and fundamental bioinformatics tools, such as network querying and alignment, subnetwork extraction and search, network biomarker identification.