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applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2020

basset

Convolutional neural network analysis for predicting DNA sequence activity.

bioimage_analysis

Evaluation of biological effects from microscopy images

bioinformatics-coffee-hour

Short lessons from FAS Informatics coffee hour

biostat561

Course materials for BIOST561

cellpose

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

cellprofiler

An open-source application for biological image analysis

dabest-python

Data Analysis with Bootstrapped ESTimation

deepcell-tf

Deep Learning Library for Single Cell Analysis

docs.targetvalidation.org

faceswap

Deepfakes Software For All

fatdistngwas

Code and data related to the meta-analysis of fat distribution in UK Biobank and GIANT

finance_and_covid_tracking_dashboard

gms_stats_course

Content for the GMS Statistics Course

gwa_tutorial

A comprehensive tutorial about GWAS and PRS

gwas_catalog-workshop

Training material for the GWAS Catalog REST API workshop

imagej-macros-utilities

A repository for some tools providing features that are external to Aivia, such as: complex image montage, LUT color mapping creation, etc.

ldsc

LD Score Regression (LDSC)

legomicroscope

To learn about optics and microscopy, we generated a simple to build lego microscope that does not need precision optics and 3D printed parts.

mesmerize

Platform for Calcium Imaging analysis

nvidia-docker

Build and run Docker containers leveraging NVIDIA GPUs

openmm

OpenMM is a toolkit for molecular simulation using high performance GPU code.

oxcompbio

Materials for the oxford computational biochemistry course including python

r-graph-gallery

A website that displays hundreds of R charts

richardyando.github.io

A lightweight theme for Jekyll featuring a minimalist, content-first design.

sanpy

SanPy is software for whole-cell current clamp analysis.

sas-python-work

scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

stneuronet

Software for the paper "Fast and robust active neuron segmentation in two-photon calcium imaging using spatio-temporal deep learning," Proceedings of the National Academy of Sciences (PNAS), 2019.

tests-as-linear

Common statistical tests are linear models (or: how to teach stats)