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gallery.yml
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# Cancer Bioinformatics Visualizations
- category: Cancer Bioinformatics
description: |
The Cancer Bioinformatics Visualizations Gallery presents interactive visualizations of cancer data, including genomic, transcriptomic, and proteomic insights. It helps researchers and clinicians explore molecular mechanisms, patient outcomes, and potential therapeutic targets through intuitive visual tools.
tiles:
- title: Tumor-normal box plot
code: https://github.com/hossainlab/dataviz-gallery
thumbnail: code/tcga_workflow/figures/01_pan_cancer_tumor_vs_normal/PIK3R1_box_plot.png
- title: Paired tumor-normal box plot
code: https://github.com/hossainlab
thumbnail: code/tcga_workflow/figures/02_pan_cancer_paired_tumor_vs_normal/PIK3R1_paired_box_plot.png
- title: Pan-tumor box plot
code: https://github.com/hossainlab
thumbnail: code/tcga_workflow/figures/03_pan_tumor/PIK3R1_box_plot.png
- title: Gene expression and TMB correlation radar chart
code: https://github.com/hossainlab
thumbnail: code/tcga_workflow/figures/04_pan_cancer_tmb_correlation/PIK3R2_tmb_correlation_radar.png
- title: Gene expression and MSI correlation radar chart
code: https://github.com/hossainlab
thumbnail: code/tcga_workflow/figures/05_pan_cancer_msi_correlation/PIK3R2_msi_correlation_radar.png
- title: Gene expression and ICGs correlation
code: https://github.com/hossainlab
thumbnail: code/tcga_workflow/figures/06_icg_correlation/PIK3R1_icg_correlation.png
- title: Gene expression and Chemokine correlation
code: https://github.com/hossainlab
thumbnail: code/tcga_workflow/figures/07_chemokine_correlation/PIK3R1_chemokine_correlation.png
- title: Gene expression and Chemokine receptor correlation
code: https://github.com/hossainlab
thumbnail: code/tcga_workflow/figures/08_chemokine_receptor_correlation/PIK3R1_chemokine_receptor_correlation.png
- title: Gene expression and Immune stimulator correlation
code: https://github.com/hossainlab
thumbnail: code/tcga_workflow/figures/09_immune_stimulator_correlation/PIK3R1_immune_stimulator_correlation.png
# Mutational Patterns
- category: Mutational Patterns
description: |
Comprehensive genome-wide analysis of mutational processes.
tiles:
- title: De novo mutational signature extraction using NMF
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/nmf_estimate.png
- title: Consensusmap
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/nmf_heatmap.png
- title: Mutational Signatures Extraction
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/mutational_profiles.png
- title: Contribution of Signatures
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/signature_contribution.png
- title: Contribution of Signatures (flipped)
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/signature_contribution_flipped.png
- title: Contribution of Signatures (Heatmaps)
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/signature_contribution_heatmap.png
- title: Reconstructed and original mutational profile
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/profile_comparison.png
- title: Cosmic Mutational Signatures
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/cosmic_signatures.png
- title: Cosmic Dendrogram
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/cosmic_dendrogram.png
- title: cosine similarity Heatmap
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/mutational_patterns/scripts
thumbnail: code/mutational_patterns/figures/cosine_similarity_heatmap.png
# Biological Data Visualization
- category: Biological Data Visualizations
description: |
A curated collection of reproduced and original data visualizations focused on biological data using R.
tiles:
- title: Bar plot - Variants per chromosome
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/biological_dataviz/scripts
thumbnail: code/biological_dataviz/figures/barplot_variants_per_chromosome.png
- title: Histogram - Variant size distribution
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/biological_dataviz/scripts
thumbnail: code/biological_dataviz/figures/histogram_variant_size.png
- title: Scatter plot - Reference vs. Query Distance
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/biological_dataviz/scripts
thumbnail: code/biological_dataviz/figures/scatter_ref_vs_query.png
- title: Violin plot - Variant size by type
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/biological_dataviz/scripts
thumbnail: code/biological_dataviz/figures/violinplot_variant_size.png
- title: Density plot - Density plot of variant sizes
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/biological_dataviz/scripts
thumbnail: code/biological_dataviz/figures/densityplot_variant_size.png
- title: Pie chart - Variant type distribution
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/biological_dataviz/scripts
thumbnail: code/biological_dataviz/figures/piechart_variant_types.png
- title: Venn Diagram
code: https://github.com/hossainlab/dataviz-gallery/tree/main/code/biological_dataviz/scripts
thumbnail: code/biological_dataviz/figures/venn_genes.png
# A Curated Collection
- category: Reproducing Plots with R - A Curated Collection
description: |
A curated collection of reproduced data visualizations using R.
tiles:
- title: US Gun Homicide Rate Higher Than Other Developed Countries
subtitle: by ABC News
href: https://abcnews.go.com/blogs/headlines/2012/12/us-gun-ownership-homicide-rate-higher-than-other-developed-countries/
code: https://github.com/hossainlab/dataviz-gallery
thumbnail: code/reproduce_figure/figures/homicide_plot.png
- title: Gun Murders per 100,000 residents
subtitle: by Everytown
href: https://everytownresearch.org/
code: https://github.com/hossainlab/dataviz-gallery
thumbnail: code/reproduce_figure/figures/gun_murders_plot.png
- title: Battling Infectious Diseases
subtitle: by Wall Street Journal
href: https://graphics.wsj.com/infectious-diseases-and-vaccines/?mc_cid=711ddeb86e
code: https://github.com/hossainlab/dataviz-gallery
thumbnail: code/reproduce_figure/figures/battling_infectious_diseases_plot.png
- title: City to Toughen Auditing of School Test Scores
subtitle: by New York Times
href: https://www.nytimes.com/2011/02/19/nyregion/19schools.html
code: https://github.com/hossainlab/dataviz-gallery
thumbnail: code/reproduce_figure/figures/diploma_score_plot.png
- title: Who will win the presidency?
subtitle: by fivethirtyeight
href: https://projects.fivethirtyeight.com/2016-election-forecast/
code: https://github.com/hossainlab/dataviz-gallery
thumbnail: code/reproduce_figure/figures/voting_plot.png
- title: Temperature anomaly
subtitle: by NOAA
href: https://simplystatistics.org/posts/2019-07-19-more-datasets-for-teaching-data-science-the-expanded-dslabs-package/
code: https://github.com/hossainlab/dataviz-gallery
thumbnail: code/reproduce_figure/figures/temperature_anomaly .png
# Dataviz Inspiration
# - category: Dataviz Inspiration
# description: |
# A curated collection of data visualization inspirations.
# tiles:
# - title: New Covid-19 cases, US
# subtitle: by The New York Times
# href: https://www.nytimes.com/2022/01/06/opinion/omicron-covid-us.html
# thumbnail: dataviz-inspirations/omicron-NYT.png
# - title: Mario Kart world's records
# subtitle: by Cédric Scherer
# href: https://r-graph-gallery.com/web-lollipop-plot-with-r-mario-kart-64-world-records.html
# thumbnail: dataviz-inspirations/lollipop-plot-with-r-mario-kart-64-world-records.png