Yinuo Jin (YinuoJin)

YinuoJin

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Yinuo Jin's repositories

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Baysor

Bayesian Segmentation of Spatial Transcriptomics Data

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cell2loc_simulate

Cell2location paper - Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics

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cellpose

a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

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DMT_loss

DMT codes for the ICLR 2021 paper: Topology-Aware Segmentation Using Discrete Morse Theory

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dynamicTreeCut

Python translation of the hybrid dynamicTreeCut method as created by Peter Langfelder and Bin Zhang.

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intro-numerical-methods

Jupyter notebooks and other materials developed for the Columbia course APMA 4300

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nichenetr

NicheNet: predict active ligand-target links between interacting cells

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Probabilistic-Programming-and-Bayesian-Methods-for-Hackers

aka "Bayesian Methods for Hackers": An introduction to Bayesian methods + probabilistic programming with a computation/understanding-first, mathematics-second point of view. All in pure Python ;)

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scvi-tools

Deep probabilistic analysis of single-cell omics data

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splatter

Simple simulation of single-cell RNA sequencing data

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starfysh

Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology

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statannotations

add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.

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treetime

Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction

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