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23e_urp

Code for the 2023 CSHL URP Python Programming Course

afni

Official AFNI source and documentation

afni-integration

Repository for parsers and descriptors related to the AFNI project (created for the DCCC event in Sept 2018)

anki

Anki for desktop computers

anonymize-survival

ansible-afni

Ansible role to install AFNI

antlr4

ANTLR (ANother Tool for Language Recognition) is a powerful parser generator for reading, processing, executing, or translating structured text or binary files.

ants-builds

Dockerfile to build ANTs from source

aoc_2021

Advent of Code 2021 (C# and F#)

apptainer-in-docker

Apptainer in Docker!

asap

Program for the analysis and visualization of whole-slide images in digital pathology

asap-container

Container for ASAP software

ascii-emoji

Essential Emoji

autokeras

AutoML library for deep learning

bedtools2

bedtools - the swiss army knife for genome arithmetic

bids-validator

Validator for the Brain Imaging Data Structure

bioinfor-deepatt

DeepATT, a hybrid deep neural network method for identifying functional effects of DNA sequences.

bmi511

homework for BMI511 at stony brook

boulder

An ACME-based certificate authority, written in Go.

brainiak

Brain Imaging Analysis Kit

brainverse

Electronic Lab Notebook

breakout

cancer-metadata

machine-readable information for the TCGA dataset, mirrored from other sources

car-safety-shiny

An R Shiny app -- final project for BMI 530

cipher

clam

Data-efficient and weakly supervised computational pathology on whole slide images - Nature Biomedical Engineering

classification-of-gbm-vs-pcnsl-using-cnns

Classification of Glioblastoma versus Primary Central Nervous System Lymphoma using Convolutional Neural Networks

coco2019-giraffe

testing giraffe

coco2019-training

Training materials for the ReproNim day at https://coastal-coding.github.io

codebase