Bigdatagenomics Adam by bigdatagenomics

[](http://search.maven.org/#search%7Cga%7C1%7Corg.bdgenomics.adam) [](http://javadoc.io/doc/org.bdgenomics.adam/adam-core-spark32.12)

ADAM is a library and command line tool that enables the use of Apache Spark to parallelize genomic data analysis across cluster/cloud computing environments. ADAM uses a set of schemas to describe genomic sequences, reads, variants/genotypes, and features, and can be used with data in legacy genomic file formats such as SAM/BAM/CRAM, BED/GFF3/GTF, and VCF, as well as data stored in the columnar Apache Parquet format. On a single node, ADAM provides competitive performance to optimized multi-threaded tools, while enabling scale out to clusters with more than a thousand cores. ADAM's APIs can be used from Scala, Java, Python, R, and SQL. Why ADAM?

Over the last decade, DNA and RNA sequencing has evolved from an expensive, labor intensive method to a cheap commodity. The consequence of this is generation of massive amounts of genomic and transcriptomic data. Typically, tools to process and interpret these data are developed with a focus on excellence of the results generated, not on scalability and interoperabilit