bigdatagenomics/avocado

Stars
71
Rank 427,316 (Top 9 %)
Language
Scala
License
Apache License 2.0
Created over 10 years ago
Updated about 5 years ago

bigdatagenomics/avocado

bigdatagenomics

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A Variant Caller, Distributed. Apache 2 licensed.

adam

ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.

mango

A scalable genome browser. Apache 2 licensed.

bdg-formats

Open source formats for scalable genomic processing systems using Avro. Apache 2 licensed.

cannoli

Distributed execution of bioinformatics tools on Apache Spark. Apache 2 licensed.

eggo

Ready-to-go Parquet-formatted public 'omics datasets

rice

An RNA pipeline built on top of ADAM. Apache 2 licensed.

utils

General utility code used across BDG products. Apache 2 licensed.

awesome-adam

Awesome list of applications that extend Big Data Genomics ADAM. CC0 licensed.

bigdatagenomics.github.io

Web Site for the Big Data Genomics Group

gnocchi

workflows

Toil workflows for bigdatagenomics tools. Apache 2 licensed.

bdg-services

Utility classes for wrapping services or other interfaces around a Spark/ADAM cluster. Apache 2 licensed.

lime

Distributed Set Theory for Genomics

recipes

Recipes using BDG projects. Apache 2 licensed.

PacMin

Assembler for PacBio reads. Apache 2 licensed.

quinine

A refreshing treatment for all quality control ailments. Apache 2 licensed.

jenkins-docker

toil-wdl-api

Exemplar API that mediates Toil with a WDL front-end and workflow tracking.