awesome-biological-visualizations
Bio Visualization Hub
A curated collection of web-based interactive tools for visualizing and analyzing biological data.
A list of web-based interactive biological data visualizations.
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awesomeawesome-listbiologycancerdata-visualizationgenomicsmedicinetranscriptomicsvisualization
Awesome Biological Visualizations / Cancer | |||
| COSMIC Cancer Browser | Browse COSMIC data by tissue type and histology | ||
| UCSC Xena | Explore functional genomic data sets for correlations between genomic and/or phenotypic variables | ||
| cBioPortal for Cancer Genomics | Visualization, analysis and download of large-scale cancer genomics data sets | ||
| iCoMut Beta for FireBrowse | Interactive exploration of mutation rates, mutation signatures, clinical data, gene mutations | ||
| MAGI | Visualization and collaborative annotation of genomic aberrations | ||
| ExploSig | Interactive visualization of mutational signatures and clinical data | ||
| Race, Gender, and Age in TCGA | An interactive visualization of patient gender, race, and age in The Cancer Genome Atlas (TCGA) dataset | ||
| OASISPRO | Omics analysis tool for clinical phenotype prediction | ||
| Signal | Mutational signatures extracted from cancer samples and isogenic cell-based experiments | ||
| Oncoscape | An integrated suite of analysis tools for users to explore hypotheses related to molecular and clinical data | ||
Awesome Biological Visualizations / Genomics | |||
| UCSC Genome Browser | Interactively visualize genomic data | ||
| Ensembl | A genome browser for vertebrate genomes that supports research in comparative genomics, evolution, sequence variation and transcriptional regulation | ||
| IMP: Integrative Multi-species Prediction | Analyze your experimental results in the functional context of gene-gene networks from multiple organisms | ||
| PLACNETw | A graph-based tool for reconstruction of plasmids from next generation sequence pair-end datasets | ||
| PhyD3 | A phylogenetic tree viewer | ||
| Archaeopteryx | Visualization, analysis, and editing of phylogenetic trees | ||
| GeneMANIA | Helps predict the function of genes and gene sets | ||
| Mutaframe | Visualize variants of the human genome | ||
| Coessentiality | A genome-wide almanac of co-essential modules assigns function to uncharacterized genes | ||
| Gosling | A grammar-based toolkit for scalable and interactive genomics data visualization | ||
Awesome Biological Visualizations / 3D Genomics | |||
| HiGlass | A tool for exploring genomic contact matrices and tracks | ||
| HiPiler | A tool for visually exploring and aggregating reoccurring patterns (like loops, TADs, etc.) in Hi-C maps | ||
| Delta | An integrative analysis and visualization platform for 3D genome | ||
| Juicebox | Visualization for Hi-C data | ||
| TADkit | 3D genome browser and TADbit front-end | ||
Awesome Biological Visualizations / Metagenomics | |||
| Metaviz | Interactive statistical and visual analysis of metagenomic data | ||
| Malaria Cell Atlas | Explore how genes are expressed across more than 500 individual Plasmodium parasites | ||
Awesome Biological Visualizations / Epigenomics | |||
| Epiviz | Interactive visual analytics for functional genomics data | ||
| GIVe | Epigenome and genome interaction | ||
| WashU Epigenome Browser | Displays many sequencing-based data sets across all or part of the genome, on specific gene sets or pathways, and in the context of their metadata | ||
| Clustergrammer CCLE Explorer | Browse relative mRNA expression data for cancer cell lines from the Cancer Cell Line Encyclopedia (CCLE) by tissue of origin using Clustergrammer | ||
| Peax | 68 | almost 4 years ago | Interactive visual pattern exploration in epigenomic data using unsupervised deep representation learning |
Awesome Biological Visualizations / Proteomics | |||
| COSMIC-3D | A platform for understanding cancer mutations in the context of 3D protein structure | ||
| EzMol | Visualisation and image production of protein and nucleic acid structures | ||
| LiteMol | Visualization of large-scale macromolecular structure data | ||
Awesome Biological Visualizations / Spatial transcriptomics | |||
| Vitessce | Visual integration tool for exploration of spatial single-cell experiment data | ||
| Brain mRNA Isoform Atlas | Visualize cell type signatures of alternative splicing in postnatal development | ||
| AlzMap | Spatial transcriptomics in Alzheimer's disease | ||
| Loom Viewer | Tool for sharing, browsing and visualizing single-cell data stored in the Loom file format | ||
| TissUUmaps | Interactive visualization of large-scale spatial gene expression and tissue morphology data | ||
| Giotto Viewer | A web-based visualization package for spatial transcriptomic data | ||
Awesome Biological Visualizations / (Non-spatial) Transcriptomics | |||
| cellxgene | An interactive explorer for single-cell transcriptomics data | ||
| UCSC Cell Browser | An interactive viewer for single-cell expression | ||
| L1000FWD | Large-scale visualization of drug-induced transcriptomic signatures | ||
| ASAP | A collaborative portal to analyze single-cell transcriptomics data | ||
| SCope | A visualization tool for large-scale scRNA-seq datasets | ||
| Mouse Brain Atlas | Atlas of cell types from the Linnarsson Lab | ||
| Broad Institute Single Cell Portal | Reducing barriers and accelerating single-cell research | ||
| Allen Brain Map - Transcriptomics Explorer | Atlas of human and mouse transcriptomic cell types | ||
| Single Cell VR | Interactive visualization of single-cell data in virtual reality | ||
| SPRING | A tool for uncovering high-dimensional structure in single-cell gene expression data | ||
| START | Shiny Transcriptome Analysis Resource Tool allows users to visualize RNA-seq data starting with count data | ||
| iSEE | The Interactive SummarizedExperiment Explorer | ||
| TISCH | Tumor Immune Single-cell Hub (TISCH) is a scRNA-seq database focusing on tumor microenvironment | ||
Awesome Biological Visualizations / (Non-spatial) Transcriptomics / Gene expression matrices | |||
| EBI Single Cell Expression Atlas | Single cell gene expression across species | ||
| MORPHEUS | Versatile matrix visualization and analysis software | ||
| Clustergrammer | Visualize high-dimensional data as interactive hierarchically clustered heatmaps | ||
Awesome Biological Visualizations / Microscopy | |||
| IONpath MIBItracker | Slide and image data | ||
| Avivator | A lightweight "batteries-included" WebGL viewer for remote imaging data in Bio-Formats Zarr or OME-TIFF format | ||
Awesome Biological Visualizations / Connectomics | |||
| neuroglancer | Tool for visualization of highly detailed maps of neuronal connectivity in the fly brain | ||
| Allen Mouse Brain Connectivity Atlas | A high-resolution map of neural connections in the mouse brain | ||
| FlyWire | A human-AI collaboration to map the fly connectome | ||
Awesome Biological Visualizations / Metabolomics | |||
| Metaspace | A platform for metabolite annotation of imaging mass spectrometry data | ||
Awesome Biological Visualizations / Mass Spectrometry | |||
| Cytosplore | Cytosplore is an interactive visual analysis system for the analysis of mass cytometry data | ||
Awesome Biological Visualizations / Populations | |||
| Nextstrain | Real-time tracking of virus evolution | ||
| Institute for Health Metrics and Evaluation | Visualizations of disease worldwide | ||
| Lifespans | Visualization of the lifespans of multiple species | ||
| Life Expectancy | Life expectancies around the world, 1960 to 2009 | ||
Awesome Biological Visualizations / Medicine | |||
| Snake Oil Supplements | Scientific evidence for popular health supplements | ||
| SieveSifter | Tool for visualizing the sieve analyses of HIV-1 vaccine efficacy trials | ||
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