mathieubo Goto Github PK

agentspreading

Implementation of SIR agent-based model for pathogenic protein spreading

ap_histology

Histology processing

bg-atlasgen

bg-heatmaps

Rendering heatmaps in brainrender

cellpose-napari

napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool

coppafish

Python version of iss software

coppafish_tools

dendra_diana

Collection of Macro to quantify KFERQ-Dendra puncta in 3D using DIAna plugin

dlc_analysis

Useful scripts for the analysis of DeepLabCut tracks

gseapy

Gene Set Enrichment Analysis in Python

iss

Code for analysis of in situ sequencing

iss_viewer

iss_viewer2

kferq_helper

Helpful notebook for analysis of KFERQ-like motifs abundance

mathieubo.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

msp_pipeline

Multimodal Spatiotemporal Phenotyping pipeline

mtorc2_mito_fission

Jupyter notebooks to process proteomic data

multi_padlock_design

Padlock design pipeline for multiplexed assay with multiple probes per target in cDNA-based expression profiling

pathospreading

pciseq

A probabilistic cell typing algorithm for spatial transcriptomics.

perceptromic

perceptromic_server

plotrecipe

Estimate plots + stats recipe

re-henderson-2019

Replication of Henderson 2019

refonkeu2019

Replication of Fonkeu et al. 2019 Neuron (DOI:10.1016/j.neuron.2019.06.022)

ridgemappyrenees

shared_iss_scripts

Dream team ISS

sir_mouse

Agent-based SIR Model for the mouse brain

snrnaseq-analysis