101 Open source projects that are alternatives of or similar to doctoral-thesis

Robust and scalable inference of cell lineages from gene expression data.

Code and Data to accompany "Dilated Convolutions for Modeling Long-Distance Genomic Dependencies", presented at the ICML 2017 Workshop on Computational Biology

screenlamp is a Python toolkit for hypothesis-driven virtual screening

The Biochemical Algorithms Library

Myokit: A simple interface to cardiac cellular electrophysiology

An R Package for Geneset Enrichment Workflows

STAPLE (Shared Tools for Automatic Personalised Lower Extremity modelling) consists of a collection of methods for generating skeletal models from three-dimensional bone geometries, usually segmented from medical images. The methods are currently being expanded to create complete musculoskeletal models.

Bioinformatics workflows developed for and used on the St. Jude Cloud project.

Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling

Contact map analysis for biomolecules; based on MDTraj

Privacy and Security focused Segment-alternative, in Golang and React

Airbyte is an open-source EL(T) platform that helps you replicate your data in your warehouses, lakes and databases.

Upserts, Deletes And Incremental Processing on Big Data.

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

A lightweight opinionated ETL framework, halfway between plain scripts and Apache Airflow

Reference mapping for single-cell genomics

Template to deploy a Data Product for Batch data processing into a Data Landing Zone of the Data Management & Analytics Scenario (former Enterprise-Scale Analytics). The Data Product template can be used by cross-functional teams to ingest, provide and create new data assets within the platform.

Installer for Thymeflow, a personal knowledge management system.

Kuwala is the no-code data platform for BI analysts and engineers enabling you to build powerful analytics workflows. We are set out to bring state-of-the-art data engineering tools you love, such as Airbyte, dbt, or Great Expectations together in one intuitive interface built with React Flow. In addition we provide third-party data into data sc…

An Efficient RML-Compliant Engine for Knowledge Graph Construction

Configurable data bridge for permanent ETL jobs

Population Assignment using Genetic, Non-genetic or Integrated Data in a Machine-learning Framework. Methods in Ecology and Evolution. 2018;9:439–446.

A .NET class library that allows you to import data from different sources into a unified destination

Building data processing pipelines for documents processing with NLP using Apache NiFi and related services

Fast, typo tolerant, fuzzy search engine for building delightful search experiences ⚡ 🔍 ✨ An Open Source alternative to Algolia and an Easier-to-Use alternative to ElasticSearch.

Open Korean NLP Dataset Curation for the Users All Around the Globe

Aragon DAO explorer

Repository for Global.health: a data science initiative to enable rapid sharing of trusted and open public health data to advance the response to infectious diseases.

python functions for applied use of schema.org

A curation of fonts from all over the world.

📮 An integrative registry of biological databases, ontologies, and nomenclatures.

🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from primary sources.

Python library for Representation Learning on Knowledge Graphs https://docs.ampligraph.org

A computational library for learning and evaluating biological knowledge graph embeddings

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

STransE: a novel embedding model of entities and relationships in knowledge bases (NAACL 2016)

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

A collection of papers, codes, projects, tutorials ... for Knowledge Graph and other NLP methods

Inductive relation prediction by subgraph reasoning, ICML'20

Schema and generated objects for biolink data model and upper ontology