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OmicFlow (version 1.5.0)

Fast and Efficient (Automated) Analysis of Sparse Omics Data

Description

A generalised data structure for fast and efficient loading and data munching of sparse omics data. The 'OmicFlow' requires an up-front validated metadata template from the user, which serves as a guide to connect all the pieces together by aligning them into a single object that is defined as an 'omics' class. Once this unified structure is established, users can perform manual subsetting, visualisation, and statistical analysis, or leverage the automated 'autoFlow' method to generate a comprehensive report.

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Install

install.packages('OmicFlow')

Monthly Downloads

241

Version

1.5.0

License

MIT + file LICENSE

Issues

0

Pull Requests

0

Stars

1

Forks

0

Maintainer

Alem Gusinac

Last Published

January 26th, 2026

Functions in OmicFlow (1.5.0)

pairwise_adonis

Pairwise adonis2 (PERMANOVA) computation
pairwise_anosim

Pairwise anosim (ANOSIM) computation
matrix_to_dtable

Converting a Matrix to data.table
jsd

Compute Jensen-Shannon Divergence from a Dense or Sparse Matrix.
metagenomics

Sub-class metagenomics
ordination_plot

Ordination plot
manhattan

Compute Manhattan Dissimilarity from a Dense or Sparse Matrix.
jaccard

Compute Jaccard Dissimilarity from a Dense or Sparse Matrix.
omics

Abstract omics class
hill_taxa

Sparse implementation of Hill numbers
plot_pairwise_stats

Create pairwise stats plot
proteomics

Sub-class proteomics
volcano_plot

Volcano plot
unifrac

Compute UniFrac Dissimilarity from a Dense or Sparse Matrix.
column_exists

Checks if column exists in table
colormap

Color map of a variable
composition_plot

Compositional plot
canberra

Compute Canberra Dissimilarity from a from a Dense or Sparse Matrix.
foldchange

Computes Log2(A) - Log2(B) Fold Change of (non-) paired data.
diversity_plot

Diversity plot
OmicFlow-package

OmicFlow: Fast and Efficient (Automated) Analysis of Sparse Omics Data
diversity

Sparse implementation of Alpha Diversity Metrics
bray

Compute Bray-Curtis Dissimilarity from a Dense or Sparse Matrix.
cosine

Compute Cosine Dissimilarity from a Dense or Sparse Matrix.