GitHub
https://github.com/batmen-lab/diamond
Error-controlled interaction discovery in machine learning models
https://github.com/battmodels/diffthermo_ocv_paper
diffthermo, a python package for thermodynamically consistent OCV model construction
https://github.com/battmoteam/pybamm
Fast and flexible physics-based battery models in Python
https://github.com/bbglab/oncodrive3d
A computational approach for identifying cancer driver genes by detecting three-dimensional clusters of somatic missense mutations in protein structures.
https://github.com/bbopt/rungekutta
The RUNGE-KUTTA blackbox optimization problem
https://github.com/beatlab-mcmaster/schlichting_msc_thesis
Code and data to reproduce my master's thesis.
https://github.com/bede/deacon
FASTX search and [host] depletion using minimizers
https://github.com/beefathima-git/cloud-computing-for-real-time-surveillance-applications-
This project utilizes fog and cloud computing to enable low-latency, real-time surveillance by processing video and sensor data closer to the source. It improves responsiveness, reduces bandwidth usage, and enhances system scalability for smart surveillance applications.
https://github.com/beehive-lab/tornadovm
TornadoVM: A practical and efficient heterogeneous programming framework for managed languages
https://github.com/benjamindecker/quantum-cellular-automaton
A classical simulation of quantum cellular automata
https://github.com/benjaminhlina/nichetools
Complementary functions to extract and work with objects created by {nicheROVER} and {SIBER}
https://github.com/benjaminhlina/lake-ontario-ecoregions-ms
Data and code for paper centred on trophic differences among ecoregions in Lake Ontario
https://github.com/benweare/em_scripts
Electron microscopy scripts not associated with any specific publications.
https://github.com/berenslab/disentangling-retinal-images
This repository contains the code for the paper "Disentangling representations of retinal images with generative models".
https://github.com/bhklab/signaturesets
Compendium of published molecular signatures
https://github.com/bihealth/fracture-healing-and-aging-scseq
single-cell bone healing project
https://github.com/billbrod/spatial-frequency-model
Model from the spatial frequency preferences paper
https://github.com/billbrod/foveated-metamers
Create metamers using models of the ventral stream and run experiments to validate them
https://github.com/bin-cao/tcgpr
[NPJ Com Mat 2023 | Small 2024] Machine Learning Algorithm : outlier identifying, feature selection
https://github.com/biodt/general-soilgrids-soil-data
Building block for obtaining selected soil data at given location from SoilGrids and derived data sources (Soilgrids REST API, HiHydroSoil map).
https://github.com/biodt/uc-grassland-model
grassland simulation model source code
https://github.com/bioinfomachinelearning/gate
Graph transformer for estimating protein model accuracy
https://github.com/biop/qupath-extension-cellpose
an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.
https://github.com/bioscan-ml/bioscan-1m
A Step Towards Worldwide Biodiversity Assessment: The BIOSCAN-1M Insect Dataset
https://github.com/biswesh456/bargaining
This repo contains code for the paper Incorporating Autonomous Bargaining Capabilities into E-Commerce Systems which was accepted in ACM IVA 2020.
https://github.com/bitcs-information-retrieval-2021-2022/assignment-description
Description of Final Assignments of Information Retrieval Course 2021-2022
https://github.com/bluebrain/topological_sampling
The analysis pipeline for the topological sampling project
https://github.com/bluebrain/neurodamus
A BBP Simulation Control application for NEURON
https://github.com/bluebrain/psp-validation
Perform spontaneous minis validations
https://github.com/bluebrain/currentscape
Currentscape is a Python tool enabling scientists to easily plot the currents in electrical neuron models. The code is based on the paper Alonso and Marder, 2019.
https://github.com/bluebrain/astrovascpy
Vasculature blood flow computation and impact of astrocytic endfeet on vessels
https://github.com/bluebrain/atlas-enhancement
Tools to generate flatmaps of brain atlases & code to add barrel and barrel column annotations to Allen Mouse CCFv3
https://github.com/bluebrain/vessmorphovis
A lightweight, interactive, extensible and cross-platform framework for building, visualizing and analyzing vasculature (or blood vessels) morphologies.
https://github.com/bluegreen-labs/swift_cc894
Analysis of the 19 month flight of juvenile swift CC894
https://github.com/bodenmillergroup/scpathology_publication
The Single-Cell Pathology Landscape of Breast Cancer
https://github.com/boniolp/tsadtaxonomy
This application helps users explore and understand the vast array of existing methods, ranging from traditional statistical approaches to modern machine learning algorithms. It visualizes a structured, process-centric taxonomy of anomaly detection techniques, enabling a deeper insight into the research landscape.
https://github.com/borchlab/ibex
Using BCR and expression for sequence embedding
https://github.com/brain-development-and-disorders-lab/mars
Metadatify is an open-source web-based tool to create, manage, and search scientific metadata.
https://github.com/braingeneers/sims-web
Attempt to run SIMS inference in the browser
https://github.com/bramvanroy/mantis
Segmentation interface for the TPR-DB to manually tokenize and sentence segment
https://github.com/bridgedb/wikidata2bridgedb
Creation of BridgeDb mapping databases from Wikidata
https://github.com/britishgeologicalsurvey/ash-model-plotting
Wrapper around Iris Python library for easy plotting of NAME, FALL3D and HYSPLIT model results.
https://github.com/broadinstitute/one-shot-atlas
Siamese Neural Network for anatomical registration
https://github.com/broadinstitute/str-truth-set
Genome-wide tandem repeat (TR) truth set based on the Synthetic Diploid Benchmark [Li et al. 2018]
https://github.com/broadinstitute/sma-finder
A tool for diagnosing SMA using exome, genome or targeted sequencing data
https://github.com/broadinstitute/g2papi
Python Client Library for the G2P Portal API
https://github.com/brucewlee/conference_cheatsheet
publication-related stuff, largely for myself
https://github.com/bryanparthum/usrw_waterquality
Code and data for "Overlooked Benefits of Nutrient Reductions in the Mississippi River Basin"
https://github.com/bueler/mcd-extended
extending the multilevel constraint decomposition method of Tai (2003)