HipMer is the first end-to-end de novo genome assembler designed for extreme scale analysis via efficient parallelization. The single-genome assembly implementation is a high-performance parallelization and port of the Meraculous assembler (http://jgi.doe.gov/data-and-tools/meraculous/). The MetaHipMer extension is a recent addition to HipMer that is geared to large metagenomes and leverages iterative kmer sizes and a specialized scaffolding algorithm to produce increased contiguity and accuracy in metagenomic assemblies. It is able to reconstruct rRNA elements via a separate algorithm which relies on reference SSU and LSU Hidden Markov Models to help traverse the contig graph around ribosomal RNA regions.

For more information and publications visit the HipMer Portal (http://portal.nersc.gov/project/hipmer/)

MetaHipMer is one component of the ExaBiome project (https://sites.google.com/lbl.gov/exabiome/home), part of the Exascale Computing Project: https://www.exascaleproject.org/

Features

  • UPC++
  • UPC
  • GASNet-EX
  • High Performance
  • Distributed Memory
  • Genomic Assembler
  • Diploid Assembler
  • Meta-Genome assembler
  • Meraculous
  • Exascale Computing Project
  • ExaBiome
  • Metagenome

Project Samples

Project Activity

See All Activity >

Follow HipMer

HipMer Web Site

Other Useful Business Software
Crowdtesting That Delivers | Testeum Icon
Crowdtesting That Delivers | Testeum

Unfixed bugs delaying your launch? Test with real users globally – check it out for free, results in days.

Testeum connects your software, app, or website to a worldwide network of testers, delivering detailed feedback in under 48 hours. Ensure functionality and refine UX on real devices, all at a fraction of traditional costs. Trusted by startups and enterprises alike, our platform streamlines quality assurance with actionable insights. Click to perfect your product now.
Click to perfect your product now.
Rate This Project
Login To Rate This Project

User Reviews

Be the first to post a review of HipMer!

Additional Project Details

Registered

2016-03-10