dantro
dantro is a Python package to handle, transform, and visualize hierarchically structured data. Docs @ https://dantro.readthedocs.io — NOTE: This repository is a READ-ONLY-MIRROR of the actual development repository; for open issues and MRs, see there:
spilterlize_integrate
A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices resulting from next-generation sequencing (NGS) experiments (e.g., RNA-seq, ATAC-seq, ChIP-seq, Methyl-seq, miRNA-seq,...) including confounding factor analysis and diagnostic visualizations.
mixscape_seurat
A Snakemake workflow and MrBiomics module for performing perturbation analyses of pooled (multimodal) CRISPR screens with sc/snRNA-seq read-out (scCRISPR-seq) powered by the R package Seurat's method Mixscape.
https://github.com/changliao1025/pyearth
A leatherman alike Python package for Earth science
dea_seurat
A Snakemake workflow and MrBiomics module for performing differential expression analyses (DEA) on (multimodal) sc/snRNA-seq data powered by the R package Seurat.
https://github.com/biocore/qurro
Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples
soniscope-jupyter
jupyter notebook widget with a scatter plot and an interactive lens to enable interactive sonification
viztracer
A debugging and profiling tool that can trace and visualize python code execution
fingernat-pymol-plugin
PyMOL plugin to visualize interactions detected by the fingeRNAt program
zol
zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
scattertext
Beautiful visualizations of how language differs among document types.
https://github.com/bluebrain/brayns
Visualizer for large-scale and interactive ray-tracing of neurons
stoqs
Geospatial database visualization software for oceanographic measurement data
https://github.com/rerun-io/rerun
Visualize streams of multimodal data. Free, fast, easy to use, and simple to integrate. Built in Rust.
eyepy
A python package to read, analyse and visualize OCT and fundus data from various sources.
pyqtgraph
Fast data visualization and GUI tools for scientific / engineering applications
deeptime
An R package that facilitates highly customizable and reproducible visualizations of data over geological time intervals
sccustomize
R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
hypertools
A Python toolbox for gaining geometric insights into high-dimensional data
divbrowse
A web application for interactive visualization and exploratory data analysis of variant call matrices
pycomplexheatmap
PyComplexHeatmap: A Python package to plot complex heatmap (clustermap)
MHKiT-Python
MHKiT-Python provides the marine renewable energy (MRE) community tools for data processing, visualization, quality control, resource assessment, and device performance.
https://github.com/cafferychen777/ggpicrust2
Make Picrust2 Output Analysis and Visualization Easier
sigminer
🌲 An easy-to-use and scalable toolkit for genomic alteration signature (a.k.a. mutational signature) analysis and visualization in R https://shixiangwang.github.io/sigminer/reference/index.html
scpubr
Generate high quality, publication ready visualizations for single cell transcriptomics data.
konigcell
Quantitative, Fast Grid-Based Fields Calculations in 2D and 3D - Residence Time Distributions, Velocity Grids, Eulerian Cell Projections etc.
survey-live-temperature-map
These scripts create daily survey station daily temperature and anomaly plots as the ships work their way through the Bering Sea. These ships are conducting NOAA Fisheries' Alaska Fisheries Science Center's fisheries independent surveys in the Eastern Bering Sea. Scripts pull temperatures from google drive, entered by FPCs at sea, create daily maps and composite gifs, and then push the maps to google drive for the communications team.
https://github.com/pycroscopy/pycroscopy
Scientific analysis of nanoscale materials imaging data
FunnelPlotR
Funnel plots for comparing institutional performance, with overdispersion adjustment
https://github.com/alleninstitute/openscope_databook
OpenScope databook: a collaborative, versioned, data-centric collection of foundational analyses for reproducible systems neuroscience 🐁🧠🔬🖥️📈
https://github.com/root-project/root
The official repository for ROOT: analyzing, storing and visualizing big data, scientifically
r-hrbrthemes
:lock_with_ink_pen: Opinionated, typographic-centric ggplot2 themes and theme components
https://github.com/vaexio/vaex
Out-of-Core hybrid Apache Arrow/NumPy DataFrame for Python, ML, visualization and exploration of big tabular data at a billion rows per second 🚀
dtreeviz
A python library for decision tree visualization and model interpretation.
pycirclize
Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)
adepro
AdEPro (Animation of Adverse Event Profiles) is a Shiny application for the (audio-)visualization of adverse events during clinical trials
https://github.com/predict-idlab/plotly-resampler
Visualize large time series data with plotly.py
https://github.com/andrewtavis/poli-sci-kit
Political elections, appointment, analysis and visualization in Python
pymsaviz
MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
https://github.com/reiinakano/scikit-plot
An intuitive library to add plotting functionality to scikit-learn objects.
https://github.com/predict-idlab/tsdownsample
High-performance time series downsampling algorithms for visualization
psy-simple
psy-simple: The psyplot plugin for simple visualizations
iSEE
R/shiny interface for interactive visualization of data in SummarizedExperiment objects
gtoolkit
Glamorous Toolkit is the Moldable Development Environment. It empowers you to make systems explainable through contextual micro tools.
piling.js
A general framework and library for exploring thousands of small multiples
unsupervised_analysis
A general purpose Snakemake workflow and MrBiomics module to perform unsupervised analyses (dimensionality reduction & cluster analysis) and visualizations of high-dimensional data.
Visualization of Multi-Dimensional Data -- The data-slicer Package
Visualization of Multi-Dimensional Data -- The data-slicer Package - Published in JOSS (2021)
ggpointdensity
:chart_with_upwards_trend: :bar_chart: Introduces geom_pointdensity(): A Cross Between a Scatter Plot and a 2D Density Plot.