aristoteleo/dynamo-release

Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses

Language: Python - Size: 7.15 MB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 405 - Forks: 58

aristoteleo/spateo-release

Spatiotemporal modeling of spatial transcriptomics

Language: Python - Size: 33.1 MB - Last synced: 5 days ago - Pushed: 5 days ago - Stars: 146 - Forks: 23

aristoteleo/spateo-viewer

Web application demonstrating 3D modeling of spatial transcriptomics

Language: Python - Size: 621 MB - Last synced: 17 days ago - Pushed: 17 days ago - Stars: 10 - Forks: 3

aristoteleo/Scribe-Python-notebooks

Tutorials of Scribe Python package usage cases

Language: Jupyter Notebook - Size: 1.28 MB - Last synced: 2 months ago - Pushed: almost 5 years ago - Stars: 3 - Forks: 2

aristoteleo/dynamo-notebooks

Tutorials of Dynamo usage cases and code to reproduce the manuscript

Language: Jupyter Notebook - Size: 292 MB - Last synced: 2 months ago - Pushed: about 2 years ago - Stars: 6 - Forks: 4

aristoteleo/CSP4ML

repo for modeling and analyzing metabolic labeling data

Language: Jupyter Notebook - Size: 45.9 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 2 - Forks: 0

aristoteleo/qiu_lab_website

The source code for the Qiu lab website (based on ato-neulab)

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aristoteleo/dynast-release

Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments

Language: Python - Size: 81.4 MB - Last synced: about 1 month ago - Pushed: 10 months ago - Stars: 14 - Forks: 4

aristoteleo/spateo-tutorials

tutorials for spateo package

Language: Jupyter Notebook - Size: 175 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 6 - Forks: 1

aristoteleo/dynamo-tutorials

Tutorials on using latest dynamo package

Language: Jupyter Notebook - Size: 690 MB - Last synced: about 1 year ago - Pushed: about 1 year ago - Stars: 20 - Forks: 7

aristoteleo/estream2 Fork of cthissen/estream2

2D evenly spaced streamlines

Size: 368 KB - Last synced: about 1 year ago - Pushed: over 8 years ago - Stars: 0 - Forks: 0

aristoteleo/Scribe-py

Regulatory networks with Direct Information in python

Language: Python - Size: 242 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 36 - Forks: 6

aristoteleo/stereo-seq-with-dynamo

notebooks that use dynamo to analyze the Stereo-seq datasets

Language: Jupyter Notebook - Size: 6.03 MB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 2 - Forks: 1

aristoteleo/logging

Repository for dynamo style's logging functionalities

Language: Python - Size: 28.3 KB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 1 - Forks: 0

aristoteleo/.github

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aristoteleo/PISA Fork of shiquan/PISA

A collection of tools to process single-cell omics datasets.

Size: 5.15 MB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

aristoteleo/dynamo_readthedocs

deposit tutorials for dynamo readthedocs pages

Language: Python - Size: 390 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 6

aristoteleo/glmGamPoi Fork of const-ae/glmGamPoi

Fit Gamma-Poisson Generalized Linear Models Reliably

Size: 1.25 MB - Last synced: about 1 year ago - Pushed: almost 4 years ago - Stars: 1 - Forks: 0

aristoteleo/scg_lib_structs Fork of Teichlab/scg_lib_structs

Collections of library structure and sequence of popular single cell genomic methods

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aristoteleo/bebi103 Fork of justinbois/bebi103

Utilities for BE/Bi 103

Size: 365 MB - Last synced: about 1 year ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

aristoteleo/biocircuits Fork of justinbois/biocircuits

Utilities for Caltech course BE 150

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aristoteleo/dynamo_submission

notebooks for generating figures for submitting dynamo

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aristoteleo/public-apis Fork of public-apis/public-apis

A collective list of free APIs for use in software and web development.

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aristoteleo/COVID-19-RNA-Seq-datasets Fork of urmi-21/COVID-19-RNA-Seq-datasets

A repository for sharing information on available COVID-19 RNA-Seq datasets

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aristoteleo/mpltex Fork of liuyxpp/mpltex

A python package for producing publication quality images using matplotlib.

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aristoteleo/matplotlib_for_papers Fork of jbmouret/matplotlib_for_papers

Handout for the tutorial "Creating publication-quality figures with matplotlib"

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aristoteleo/DnaFeaturesViewer Fork of Edinburgh-Genome-Foundry/DnaFeaturesViewer

:eye: Python library to plot DNA sequence features (e.g. from Genbank files)

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aristoteleo/pyGenomeTracks Fork of deeptools/pyGenomeTracks

python module to plot beautiful and highly customizable genome browser tracks

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aristoteleo/celluloid Fork of jwkvam/celluloid

:movie_camera: Matplotlib animations made easy

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aristoteleo/python-project-blueprint Fork of MartinHeinz/python-project-blueprint

Blueprint/Boilerplate For Python Projects

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aristoteleo/scitools Fork of hplgit/scitools

Additional scientific computing functionality in Python - extensions to NumPy/SciPy++

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aristoteleo/scNT-seq Fork of wulabupenn/scNT-seq

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aristoteleo/easyplot Fork of HamsterHuey/easyplot

Easy Plot - A thin matplotlib wrapper for generating fast, easy and reusable plots in Python

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aristoteleo/streamlines Fork of anvaka/streamlines

Streamlines calculator

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aristoteleo/evenly_spaced_streamlines Fork of keithfma/evenly_spaced_streamlines

Plot evenly-spaced streamlines in MATLAB with Jobard & Lefer 1997 algorithm

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aristoteleo/vcs Fork of CDAT/vcs

Visualization Control System

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aristoteleo/rastervis Fork of oscarperpinan/rastervis

The raster package defines classes and methods for spatial raster data access and manipulation. The rasterVis package complements raster providing a set of methods for enhanced visualization and interaction.

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aristoteleo/bezier-curved-edges-networkx Fork of beyondbeneath/bezier-curved-edges-networkx

Function to produce Bezier curves for the edges in a NetworkX graph

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aristoteleo/Scribe_paper

Analysis code that was used for the Scribe paper

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aristoteleo/VectorFields Fork of OlafHaag/VectorFields

Scripts to create vector fields and flow maps that can be used in Unreal Engine 4 or Unity 3D for particle VFX.

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aristoteleo/Scribe Fork of cole-trapnell-lab/Scribe

Regulatory networks with Direct Information

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aristoteleo/Scribe-website

Repo for hosting the website of Scribe package

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