SeqPig

Use Apache Pig to process your large sequencing datasets!

Brought to you by: aalto-cloud, aimaarala, akallio, aschumach, and 2 others

Downloads: 0 This Week

Last Update: 2016-08-11

Get an email when there's a new version of SeqPig

SeqPig is a library for Apache Pig for the distributed analysis of large sequencing datasets. It provides import and export functions for file formats commonly used for sequencing data, as well as a collection of Pig user-defined-functions (UDF’s) to help process aligned and unaligned sequence data. Currently SeqPig supports BAM/SAM, FastQ and Qseq input and output.

For more information see the manual at http://seqpig.sourceforge.net/

Project Activity

See All Activity >

Follow SeqPig

SeqPig Web Site

Other Useful Business Software

AI-powered service management for IT and enterprise teams Icon

AI-powered service management for IT and enterprise teams

Enterprise-grade ITSM, for every business

Give your IT, operations, and business teams the ability to deliver exceptional services—without the complexity. Maximize operational efficiency with refreshingly simple, AI-powered Freshservice.

Try it Free

Rate This Project

Login To Rate This Project

User Reviews

Be the first to post a review of SeqPig!

Additional Project Details

Intended Audience

Healthcare Industry, Science/Research

Programming Language

Registered

2012-03-08

Report inappropriate content

Recommended Projects

Seal
A toolkit for distributed processing of HT sequencing data.
CloudBurst
CloudBurst is a parallel read-mapping algorithm optimized for mapping next-generation sequence data to the human genome and other reference genomes, for use in a variety of biological analyses including SNP discovery, genotyping, and personal genomics.
Hadoop-BAM
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