hammerlab/spark-bam

Load genomic BAM files using Apache Spark

hammerlab/magic-rdds

Miscellaneous functionality for manipulating Apache Spark RDDs.

hammerlab/shapeless-utils

type-classes for structural manipulation of algebraic data types

hammerlab/spark-tests

Utilities for writing tests that use Apache Spark.

hammerlab/sbt-parent

SBT plugins for publishing to Maven Central, shading and managing dependencies, reporting to Coveralls from TravisCI, and more

hammerlab/spark-util

low-level helpers for Apache Spark libraries and tests

hammerlab/iterators

Enrichment-methods for Scala collections (Iterators, Iterables, Arrays)

hammerlab/math-utils

Math and statistics utilities

hammerlab/io-utils

Libraries for console/file I/O, processing/formatting sizes in bytes, etc.

hammerlab/suffix-arrays

Spark-based implementation of pDC3, a linear-time parallel suffix-array-construction algorithm

hammerlab/genomic-loci

Utilities for representing genomic loci and reference-genomes

hammerlab/genomic-reads

Library for representing and working with genomic-sequencing reads.

hammerlab/string-utils

String/CSV utilities

hammerlab/adam

A genomics processing engine and specialized file format built using Apache Avro, Apache Spark and Parquet. Apache 2 licensed.

hammerlab/bdg-utils

General (non-omics) code used across BDG products. Apache 2 licensed.

hammerlab/cli-utils

Helpers for creating command-line applications

hammerlab/genomic-reference

Utilities for representing and working with reference genomes

hammerlab/genomic-readsets

Library for representing and working with sets of genomic-sequencing reads, e.g. BAM files.

hammerlab/test-utils

Unit-testing utilities