hammerlab Goto Github PK

adam

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

algebra

Experimental project to lay out basic algebra type classes

args4s

Scala-focused OptionHandlers for args4j

avm

Arteriovenous malformations

avocado

A Variant Caller, Distributed

awesome-clonality

A curated list of awesome clonality and tumor heterogeneity resources

bai-indexer

Build an index for your BAM Index (BAI)

bdg-formats

bdg-utils

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

bdgenomics-notebook

bespoke.js

Parsers and fetchers for a cornucopia of bioinformatics formats

biocaml

OCaml Bioinformatics Library

biokepi

Bioinformatics Ketrew Pipelines

biopam

OPAM repository for bioinformatics tools.

bowtie

An ultrafast memory-efficient short read aligner

case-app

Type-level & seamless command-line argument parsing for Scala

celldom-analysis

Repository for Celldom experiment analysis and configuration

cli-utils

Helpers for creating command-line applications

coclobas

Configurable Cloudy Batch Scheduler

cohorts

Utilities for analyzing mutations and neoepitopes in patient cohorts

cohorts-example

Example usage of Cohorts

concordance

Concordance between variant callers

cookiecutter-hammerlab

A cookiecutter template for pip-installable python projects, specific to Hammer lab conventions

coverage-depth

Generate genomic-coverage-depth histograms using Apache Spark

cvutils

Computer vision utilities

cycledash

Variant Caller Analysis Dashboard and Data Management System

cycledash-styleguide

cytoex

An unsupervised hierarchical gating

cytokit

Microscopy Image Cytometry Toolkit

dask-distributed-on-kubernetes

Deploy dask-distributed on google container engine using kubernetes