Big Data Genomics

Pinned Repositories

adam
ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.
Language:Scala1k 99 1.2k311
avocado
A Variant Caller, Distributed. Apache 2 licensed.
Language:Scala71 21 13642
awesome-adam
Awesome list of applications that extend Big Data Genomics ADAM. CC0 licensed.
11 4 04
bdg-formats
Open source formats for scalable genomic processing systems using Avro. Apache 2 licensed.
Language:Shell39 18 9935
bigdatagenomics.github.io
Web Site for the Big Data Genomics Group
Language:HTML10 10 27
cannoli
Distributed execution of bioinformatics tools on Apache Spark. Apache 2 licensed.
Language:Scala39 9 16417
eggo
Ready-to-go Parquet-formatted public 'omics datasets
Language:Python30 10 1058
mango
A scalable genome browser. Apache 2 licensed.
Language:Scala125 11 18432
rice
An RNA pipeline built on top of ADAM. Apache 2 licensed.
Language:Scala19 15 3617
utils
General utility code used across BDG products. Apache 2 licensed.
Language:Scala18 10 7726

Big Data Genomics's Repositories

bigdatagenomics/adam
ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.
Language:Scala1k 99 1.2k311
bigdatagenomics/mango
A scalable genome browser. Apache 2 licensed.
Language:Scala125 11 18432
bigdatagenomics/avocado
A Variant Caller, Distributed. Apache 2 licensed.
Language:Scala71 21 13642
bigdatagenomics/bdg-formats
Open source formats for scalable genomic processing systems using Avro. Apache 2 licensed.
Language:Shell39 18 9935
bigdatagenomics/cannoli
Distributed execution of bioinformatics tools on Apache Spark. Apache 2 licensed.
Language:Scala39 9 16417
bigdatagenomics/eggo
Ready-to-go Parquet-formatted public 'omics datasets
Language:Python30 10 1058
bigdatagenomics/rice
An RNA pipeline built on top of ADAM. Apache 2 licensed.
Language:Scala19 15 3617
bigdatagenomics/utils
General utility code used across BDG products. Apache 2 licensed.
Language:Scala18 10 7726
bigdatagenomics/awesome-adam
Awesome list of applications that extend Big Data Genomics ADAM. CC0 licensed.
11 4 04
bigdatagenomics/bigdatagenomics.github.io
Web Site for the Big Data Genomics Group
Language:HTML10 10 27
bigdatagenomics/gnocchi
Language:Scala6 9 2310
bigdatagenomics/bdg-services
Utility classes for wrapping services or other interfaces around a Spark/ADAM cluster. Apache 2 licensed.
Language:Java5 9 88
bigdatagenomics/lime
Distributed Set Theory for Genomics
Language:Scala5 5 173
bigdatagenomics/workflows
Toil workflows for bigdatagenomics tools. Apache 2 licensed.
Language:Python5 4 205
bigdatagenomics/recipes
Recipes using BDG projects. Apache 2 licensed.
Language:Shell4 6 14
bigdatagenomics/deca
Distributed exome CNV analyzer. Apache 2 licensed.
Language:Scala3 6 231
bigdatagenomics/mango-notebook
Notebook tools for Big Data Genomics. Apache 2 licensed.
Language:JavaScript3 10 06
bigdatagenomics/PacMin
Assembler for PacBio reads. Apache 2 licensed.
Language:Scala3 7 123
bigdatagenomics/quinine
A refreshing treatment for all quality control ailments. Apache 2 licensed.
Language:Scala2 6 256
bigdatagenomics/jenkins-docker
Language:Dockerfile1 5 02
bigdatagenomics/toil-wdl-api
Exemplar API that mediates Toil with a WDL front-end and workflow tracking.
Language:Java1 7 01
bigdatagenomics/convert
Conversions to and from Big Data Genomics Avro Formats. Apache 2 licensed.
Language:Java5 425
bigdatagenomics/corretto
Read error correction utilities.
7 22