489 Open source projects that are alternatives of or similar to BioKEEN

A curated list of ontology things

A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.

Feature extraction algorithm for genomic data

Protwis is the backbone of the GPCRdb. The GPCRdb contains reference data, interactive visualisation and experiment design tools for G protein-coupled receptors (GPCRs).

GWAS summary statistics files QC tool

The BridgeDb Library source code

🎯 Human transcription factor target genes.

GNparser normalises scientific names and extracts their semantic elements.

Bystro genetic analysis (annotation, filtering, statistics)

A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment

Ploidy agnostic phasing pipeline and algorithm

Toolkit for preparing genomes for submission to NCBI

Assembling the cause of phenotypes and genotypes from NGS data

Computational Analysis of Novel Drug Opportunities

MetaOmGraph: a workbench for interactive exploratory data analysis of large expression datasets

Pipeline for scaffolding and breaking a genome assembly using 10x genomics linked-reads

SPARQL micro-services: A lightweight approach to query Web APIs with SPARQL

A faster lmm for GWAS. Supports GPU backend.

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

A fast and lightweight streaming RDFa parser for JavaScript

Rapid determination of appropriate reference genomes.

Source code and datasets of EMNLP2018 paper: "Differentiating Concepts and Instances for Knowledge Graph Embedding".

API for linked biological knowledge

A very small module to add Linked Data API functionality to a Python Flask installation

Method to optimally select samples for validation and resequencing

The purpose of the Islandora Metadata Interest Group (IMIG) is to investigate and provide metadata solutions that help improve metadata creation, maintenance and enhancement in Islandora.

Golang for Bioinformatics

Competency and Skills System

A suite of LDP software and middleware for RDF.rb & Rack

JavaScript library for route planning 🚴‍♂️🚉🚀

A Kotlin DSL and library to create and plot RNA 2D structures

Elenco di ontologie e vocabolari controllati. Per maggiori informazioni, si veda il readme principale e quello di singoli vocabolari/ontologie, ove presente, e la seguente documentazione

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

A pretty sweet RML engine, for RDF.

A fast and lightweight streaming JSON-LD serializer for JavaScript

A pythonic Linked Data Notifications (LDN) receiver

(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia

AAAI 2020 - InteractE: Improving Convolution-based Knowledge Graph Embeddings by Increasing Feature Interactions

Open source Java library for computational proteomics

Kubernetes metadata injection for New Relic APM to make a linkage between APM and Infrastructure data.

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

📖 Generation and Applications of Knowledge Graphs in Systems and Networks Biology

Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.

Ontology-driven Linked Data processor and server for SPARQL backends. Apache License.

Stacked Denoising AutoEncoder based on TensorFlow

🌌 mayktso: encounters at an endpoint

Command line tool to run batch jobs concurrently with ETL framework on AWS or other cloud computing resources

LD Connect is a Linked Data portal for IOS Press in collaboration with the STKO Lab at UC Santa Barbara.

MView extracts and reformats the results of a sequence database search or multiple alignment.

A more handy way to use SPARQL data in your web app

Streamlining SLAM-seq analysis with ultra-high sensitivity

Express based server that exposes Linked Connections.

Unsupervised domain adaptation method for relation extraction

An R package for reproducible and automated ADMIXTOOLS analyses

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)

Useful bioinformatic scripts

3D printed sculpture of a DNA molecule, showing my own genome

WebGL Heatmap Viewer for Big Data and Bioinformatics

The tool for visualizing Swiss Open Government Data. Project ownership: Federal Office for the Environment FOEN