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BioPhi
BioPhi is an open-source antibody design platform. It features methods for automated antibody humanization (Sapiens), humanness evaluation (OASis) and an interface for computer-assisted antibody sequence design.deepbgc
BGC Detection and Classification Using Deep LearningHalyard
Halyard is an extremely horizontally scalable Triplestore with support for Named Graphs, designed for integration of extremely large Semantic Data Models, and for storage and SPARQL 1.1 querying of the whole Linked Data universe snapshots.r2rtf
Easily Create Production-Ready Rich Text Format (RTF) Table and FigureDeepNeuralNet-QSAR
matcher
Matcher is a tool for understanding how chemical structure optimization problems have been solved. Matcher enables deep control over searching structure/activity relationships (SAR) derived from large datasets, and takes the form of an accessible web application with simple deployment. Matcher is built around the mmpdb platform.rdf2x
RDF2X converts big RDF datasets to the relational database model, CSV, JSON and ElasticSearch.Sapiens
Sapiens is a human antibody language model based on BERT.pkglite
Compact Package Representationssonar-r-plugin
Adds support for R language into SonarQube. It uses output from lintr tool which is processed by the plugin and uploaded into SonarQube server.Line-of-Therapy-Algorithm
This is the Line of Therapy Algorithm, as described in the paper "Temporal phenotyping by mining healthcare data to derive lines of therapy for cancer" pending submission in the Journal of Biomedical Informatics.gsDesign2
Group Sequential Design Under Non-Proportional HazardsAlgebraicAgents.jl
A lightweight framework to enable hierarchical, heterogeneous dynamical systems co-integration. Batteries included!simtrial
Clinical trial simulation for time-to-event endpointsmetalite.ae
An R package for standard adverse events analysisBioPhi-2021-publication
This repository contains scripts, data and jupyter notebooks used to produce the evaluation results in the BioPhi 2021 publicationmetalite
An R package to create metadata structure for ADaM data analysis and reportingPepSeA
Mutation_Maker
Application for mutagenic primer design. Facilitates development of biocatalysts (Green Chemistry) and new therapeutic proteins.ReactiveDynamics.jl
A Julia package that implements a category of reaction (transportation) network-type dynamical systems.boxly
Interactive box plot for clinical trial analysismRNAid
forestly
Interactive forest plot for adverse events analysispmpo
Probabilistic Multi-Parameter Optimization (pMPO)bgc-pipeline
AbLEF
Antibody Langauge Ensemble Fusion - fuses antibody structural ensemble and language representation for property predictiongMCPLite
Lightweight graph-based multiple comparison proceduresGeneratedExpressions.jl
A Julia package that implements a metalanguage to support expression comprehensions.Data-Profiler
gMCPShiny
A Shiny app for graphical multiplicity controlNNGP
Nearest Neighbor Gaussian ProcessCEEDesigns.jl
A decision-making framework for the cost-efficient design of experiments, balancing the value of acquired experimental evidence and incurred costs.rtdpy
Residence Time Distribution modeling in Python.matcher-mmpdb
MolPROP
fuses molecular language and graph representation for property predictionReal-world-Time-to-Treatment-Discontinuation-Prediction-Algorithm
Real-world Time to Treatment Discontinuation Prediction Algorithmcompoundcomplexity
This is an implementation of Compound Complexity for use in the SMART-PMI as described by Sherer et al. It contains derived training data as required by the described Random Forest Model in order to replicate data presented in paper as well as applying to novel data.TraceTrack
gsdmvn
The goal of gsdmvn is to enable group sequential trial design for time-to-event endpoints under non-proportional hazards assumptions.curation-open-source
This wrapper enables the HPC execution of FDA DB curation and list all the step in a programming language style.Message-Hub
The Messaging Orchestration HUB will be responsible for providing a connection between an organization's GS1 EPCIS-based track and trace data source system (for example ATTP) and the blockchain networks that require data relevant to product serialization and track & trace.helm-visualisation
OMOP-CONCEPT-EMBEDDING
polo
POLO: web interface to MARCO-scored crystallization imagesdeker
This library is made to perform feature selection based on a method originally proposed in by Sun et al. [1]. This library specifically relates to the methodology described in [2], named DEKER for decomposed kernel regression, which includes methods for identifying optimal hyperparameter values. This library was also designed for use in the context of network inference, also described in [2], by iteratively reapplying the DEKER method for feature selection across all features of a dataset.BART-QSAR
3D_Tumor_Lightsheet_Analysis_Pipeline
MicroMap_Pipeline
ProbeDesign
bayesiansprt
The goal of bayesiansprt (under GPL-3 license) is to provide the results for sequential probability ratio test under frequentist and Bayesian setup.mmrm
rCPDMS
Chemoproteomics Data Analysispsm3mkv
psm3mkv: A package to evaluate the fit and efficiency of three state oncology cost-effectiveness model structuresLove Open Source and this site? Check out how you can help us