Hadoop-BAM is a Java library for the manipulation of files in common bioinformatics formats using the Hadoop MapReduce framework with the Picard SAM JDK, and command line tools similar to SAMtools.

The file formats currently supported are BAM, SAM, FASTQ, FASTA, QSEQ, BCF, and VCF.

For a longer high-level description of Hadoop-BAM, refer to the article "Hadoop-BAM: directly manipulating next generation sequencing data in the cloud" in Bioinformatics Volume 28 Issue 6 pp. 876-877, available online at: http://dx.doi.org/10.1093/bioinformatics/bts054

Note that the library part of Hadoop-BAM is mainly for developers with experience in using Hadoop. The command line tools of Hadoop-BAM should be understandable to all users, but they are limited in scope.

See the SeqPig project for a higher-level interface to the file formats supported by Hadoop-BAM: http://seqpig.sourceforge.net

See Seal for Hadoop-based read alignment tools, Seal: http://biodoop-seal.sourceforge.net

Project Activity

See All Activity >

License

MIT License

Follow Hadoop-BAM

Hadoop-BAM Web Site

Other Useful Business Software
Migrate to innovate with Red Hat Enterprise Linux on Azure Icon
Migrate to innovate with Red Hat Enterprise Linux on Azure

Streamline your IT modernization journey with a holistic environment running Red Hat Enterprise Linux on Azure.

With Red Hat Enterprise Linux on Azure, businesses can confidently modernize their IT environment, knowing they don’t have to compromise on security, scalability, reliability, and ease of management. Securely accelerate innovation and unlock a competitive edge with enterprise-grade modern cloud infrastructure.
Rate This Project
Login To Rate This Project

User Ratings

★★★★★
★★★★
★★★
★★
2
0
0
0
0
ease 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5
features 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5
design 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5
support 1 of 5 2 of 5 3 of 5 4 of 5 5 of 5 5 / 5

User Reviews

  • www.H2kinfosys.us Presents you Professional & In-depth Big Data Hadoop Online Training For Professionals and Organizations . Call us to Enroll in our training. We will provide training from utter basics to advanced level. We are offering online training with placement assistance. come and attend a free demo before joining our course. Feel free to contact us for more information or just fill our contact form we will get back to you shortly....
  • Hadoop Online Training by 123trainings.com by realtime expert. Best Hadoop Online Training in Ameerpet Hyderabad India. Hadoop Online Training Demo Class on 13/09/2013 @ 9.00 PM IST 1. Please join my meeting. 2. Use your microphone and speakers (VoIP) - a headset is recommended. Or, call in using your telephone. United States: +1 (213) 493-0603 Access Code: 672-285-413 Audio PIN: Shown after joining the meeting Meeting ID:672-285-413 GoToMeeting Online-Meetings made easy Contact: +91 9849966077, +91 9700010111, +91 9052820000 Regular batches starts every week please contact us ASAP
Read more reviews >

Additional Project Details

Intended Audience

Developers

Programming Language

Java

Related Categories

Java Bio-Informatics Software, Java Libraries

Registered

2010-12-10