bigdatagenomics/adam

Health v2 · maintenance only

Adoption not part of the score

1057 stars · 312 forks observed · 2026-08-28

What it is AI-extracted, prompt v1, taxonomy v1, 2026-08-30, confidence not recorded

ADAM is a genomics analysis platform built on Apache Spark that provides schemas and APIs for processing genomic data like reads, variants, and features. It works as both a Scala/Java/Python/R library and a CLI tool, using Avro and Parquet-based formats with support for legacy formats like BAM, VCF, and BED.

Use cases

• run DNA sequencing pipelines on a Spark cluster
• convert BAM and VCF files to Parquet for faster analytics
• parallelize variant calling across thousands of cores
• process RNA-seq read counts at scale
• query genomic data with SQL from Spark
• replace script-glued sequencing workflows with an in-memory pipeline

When to choose

• you need to scale genomics processing beyond a single machine
• you want interoperable columnar storage for genomic data
• your team already uses Spark and wants genomic APIs in Scala, Java, Python, R, or SQL

When to avoid

• you only need small-scale, single-sample analysis where standard tools like GATK or samtools suffice
• you cannot operate a Spark cluster or JVM environment
• you need a turnkey GUI-based genomics platform

Facets

library · maturity active

etl data-science cli serialization bioinformatics big-data jvm python go rust cli cloud genomics apache-spark parquet avro variant-calling sequencing scala distributed-computing data-engineering

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