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bcftools

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

biodata

Java library that models biological entities and their equivalents in different file formats typically used in bioinformatics

bionetdb

BioNetDB implements a storage engine to work with biological networks using a NoQSL Graph database

bsf_dart

bsfpython

A Python library to manage day-to-day analysis of next generation sequencing (NGS) data by the Biomedical Sequencing Facility (BSF).

calculator

A node.js demo application

cellbase

High-Performance NoSQL database and RESTful web services to access to most relevant biological data

chip-qc

dart_docs

datastore

Datastore library for querying RDBMS and NoSQL databases

funnel

Funnel is a toolkit for distributed task execution via a simple, standard API.

ga4gh

This repository implements the Protobuf and Avro schemas from GA4GH available at http://ga4gh.org/#/schemas

gatk4-exome-analysis-pipeline

This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and Indel discovery in human exome sequencing data.

gnx-tools

genome basic statistics tool (e.g. n50, n10, ng50,...)

hadoop-hbase-test

Test environment for hbase data loading

hpg-bigdata

This repository implements converters and tools for working with NGS data in HPC or Hadoop cluster

hpo-archive

HPO archive of the ontology and annotations

java-common-libs

OpenCB common libs project

lirical

LIkelihood Ratio Interpretation of Clinical AbnormaLities

melbioinf_docs

Melbourne Bioinformatics documentation in markdown format

ms-identity-java-webapp

A Java web application calling Microsoft graph that is secured using the Microsoft identity platform

neuralcr

nextflow

A DSL for data-driven computational pipelines

opencga

An Open Computational Genomics Analysis platform for big data processing and analysis in genomics

openclinica

OpenClinica is the world's first commercial open source clinical trial software for Electronic Data Capture (EDC) Clinical Data Management (CDM).

picard_blockcompressedinputstream_readline

picard BlockCompressedInputStream simple tests

pipelines-java

Sample Java application referred to by Azure Pipelines documentation

popsch-genome

Data schema for genome population data

rnafusion

RNA-seq analysis pipeline for detection gene-fusions

sga

de novo sequence assembler using string graphs