Data Visualization and Analytics

What colour are Actinomycetes? We have a tool for that! PhylaChrome - A systematic and deterministic tool for assigning colours that capture taxonomic relationships in microbiome datasets

PhylaChrome assigns deterministic colours to microbiome taxa to visually represent taxonomic relationships and improve cross-study comparisons.

MetaTree: an interactive web platform for aligned hierarchical data visualization and multi-group comparison

MetaTree provides an interactive web platform for visualizing and comparing hierarchical quantitative data across groups while preserving topology.

Figra: A WebAssembly-based Excel Add-in for publication-quality scientific visualization with ggplot2

Figra enables publication-quality scientific visualization within Excel using ggplot2 via a WebAssembly-based add-in, eliminating the need for external software.

Yomix: An Interactive Tool for the Exploration of Low-Dimensional Embeddings in Omics Data

Yomix is an interactive tool for exploring low-dimensional embeddings in omics data, allowing users to define subsets, compute feature signatures, and compare distributions.

Voronoi tessellation as a complement or replacement for confidence ellipses in the visualization of data projection and clustering results

The paper compares Voronoi tessellation and confidence ellipses for visualizing 2D data projections, finding Voronoi better reveals group overlaps and heterogeneity while confidence ellipses better identify outliers.

Visualizing and sonifying neurodata (ViSoND) for enhanced observation

ViSoND enhances observation of neurodata by combining visualization and sonification to reveal patterns in behavioral and neural data.

phylobar: an R package for multiresolution compositional barplots in omics studies

phylobar provides an R package for interactive multiresolution compositional barplots to visualize hierarchical omics data, enabling exploration across taxonomic resolutions.

nVenn2: faster, simpler generalized quasi-proportional Venn diagrams

nVenn2 generates interpretable quasi-proportional Venn diagrams for large numbers of sets by focusing on non-empty regions, improving efficiency and clarity.

MoMo - Combining Neuron Morphology and Connectivity forInteractive Motif Analysis in Connectomes

MoMo is an interactive visualization framework that analyzes neuron morphology-aware motifs in connectomes, enabling efficient subgraph isomorphism searches and intuitive exploration through a sketch-based interface.

SEAL: Spatially-resolved Embedding Analysis with Linked Imaging Data

SEAL integrates spatial imaging context with dimensionality reduction embeddings to improve interpretation of complex datasets through interactive visualization and feature importance analysis.

ggalign: Bridging the Grammar of Graphics and Biological Multilayered Complexity

ggalign provides a flexible R package for creating composable visualizations of complex, multi-dimensional biological data using layout options and annotation features.

Circuit Mining in Transcriptomics Data

The paper presents a visual analytics tool for identifying target genes in spatial transcriptomics data by analyzing brain circuits.

Datavzrd: Rapid programming- and maintenance-free interactive visualization and communication of tabular data

Datavzrd creates interactive, portable reports from tabular data without programming, enabling easy sharing and visualization across scientific disciplines.

MDSvis, a Shiny application for interactive visualisation of Multi Dimensional Scaling projections

MDSvis provides an interactive Shiny app for visualizing MDS projections, enabling users to customize and explore high-dimensional data without programming.

OmicsSankey: Crossing Reduction of Sankey Diagram on Omics Data

OmicsSankey improves Sankey diagram layouts for omics data using eigen decomposition and teleportation, enhancing interpretability on synthetic datasets.

Quantifying Misuse of Color in Biological Research

This study quantifies colormap misuse in biological research, finding 81% of articles and 60% of figures use misapplied colormaps.

Visual analytics framework for survival analysis and biomarker discovery

The paper introduces a visual analytics framework for survival analysis that enables non-programmers to perform biomarker discovery through interactive workflows and visualization tools.

treecompareR: Tree Visualizations of Chemical Space

The paper introduces treecompareR, an R package for visualizing taxonomic data using tree structures, with tools for comparing datasets and supporting chemical classification.

A self-similar helix as a metaphor for continuous time with nested periodicity

The paper introduces a hierarchical helix model to visualize time with nested periodicity and provides R functions for interactive temporal data displays.

scatterbar: an R package for visualizing proportional data across spatially resolved coordinates

The paper introduces scatterbar, an R package for visualizing proportional data across spatial coordinates, demonstrating its use on spatial transcriptomics data.

ggrain: a R package for raincloud plots

ggrain provides an R package for creating raincloud plots, combining dot, box, and violin plots for comprehensive data visualization.

Uninterpretable graphs at a scientific conference

The paper analyzes graphs of averages from a 2020 scientific conference and finds most lack necessary information for interpretation, unlike journal publications.

Quantifying Data Distortion in Bar Graphs in Biological Research

The paper quantifies data distortion in bar graphs across biological research and proposes guidelines to improve data visualization.

MooViE - Engine for single-view visual analysis of multivariate data

MooViE provides a visual analysis tool for exploring multivariate data, offering a single-view visualization to extract insights across various life science applications.

The Art of Brainwaves: A Survey on Event-Related Potential Visualization Practices

This paper surveys ERP visualization practices among M/EEG practitioners, identifies naming inconsistencies, and provides recommendations for improving visualization tools and terminology.

QuartPlotR: A quarternary phase diagram tool

QuartPlotR provides a visualization tool for multidimensional genomic datasets, enabling integration and analysis of sequence and annotation features across different genomic contexts.

Marsilea: An intuitive generalized visualization paradigm for complex datasets

Marsilea provides a flexible visualization framework for complex datasets using a cross-layout paradigm, enabling intuitive and customizable visualizations with a Python library and web interface.

Deciphering Cancer Genomes with GenomeSpy: A Grammar-Based Visualization Toolkit

GenomeSpy is a grammar-based visualization toolkit for genomic data analysis that enables interactive exploration of large datasets, demonstrated on ovarian cancer samples.

langevitour: smooth interactive touring of high dimensions, demonstrated with scRNA-Seq data

langevitour provides interactive animated 2D projections of high-dimensional data using Langevin Dynamics, offering smoother visualization than UMAP for scRNA-Seq data.

Vimo: Visual Analysis of Neuronal Connectivity Motifs

Vimo enables interactive visualization of neuronal connectivity motifs in large brain networks, allowing experts to sketch and analyze motif instances and chains in 3D.