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aerialhyphae_dlb

Python implementation of the mycelial growth model for Aerial hyphae from Coradin et al., Biochem. Eng. J. 54(3) 2011.

bia-ml-studies

repository with material I use as I am learning more of bioimage analysis and machine learning

biotoolsdocs

Documentation for bio.tools and related community projects

biotoolsschemadocs

Documentation for biotoolsSchema

bise

bise development repository

bise-documents

This directry host documents under construction, which aims to be then inserted either in BISE itself, either on the wiki

coretransientsummer

course-content

Summer course content for Neuromatch Academy

datasharing

The Leek group guide to data sharing

edam-bioimaging

Bioimaging operations, data types, formats, identifiers and topics. EDAM-Bioimaging is an extension to the EDAM ontology (edamontology.org) for bioimaging, developed in collaboration with partners from NEUBIAS (neubias.org).

eztrack

factorial_design_macro

freesciencevectors

Collection of vectorial scientific illustrations

gxl2swc

repository that shows the learning curve and the final result of a python script that reads a gxl file and converts into .swc format

hypha_wmts

Implementations of the hyphal growth model of Balmant et al., PLoS One, 10(3), 2015.

imagejmacros

imageJ 1 macros

kde_tutorial

Tutorial on how to plot multiple Kernel Density estimates of two dimensional data in the same plot

leandroscholz.github.io

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

linter-markdown-51

Atom Linter markdown #51 MWE

neubias-bise-documentation

neubiaswg5-utilities

Utilities for neubias wg5 softwares

nma-armored-newt-with-lasers

repository of the project team 044-Armored-newt-with-lasers from Neuromatch Academy 2020

suite2p

cell detection in calcium imaging recordings

swc2obj

swc2obj Files for WVU-SNRC

swc_metrics

set of filament tracing metric computation utilities (for .swc files)

swc_node_sorter

gets .swc files and sort its node list correctly in order to be accepted by DiademMetric.jar for score calculation

swcsimulator

A python package for simulating neuron models specified in the SWC format

tool-information-standard

An information standard for the description of bioinformatics software tools.

trackmate3

This is the prototype code for the 3rd version of TrackMate, planned for mid 2017.

treestoolbox

TREES toolbox