SeqPig

Use Apache Pig to process your large sequencing datasets!

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

Downloads: 1 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

Try Google Cloud Risk-Free With $300 in Credit Icon

Try Google Cloud Risk-Free With $300 in Credit

No hidden charges. No surprise bills. Cancel anytime.

Use your credit across every product. Compute, storage, AI, analytics. When it runs out, 20+ products stay free. You only pay when you choose to.

Start 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

Try Google Cloud Risk-Free With $300 in Credit

No hidden charges. No surprise bills. Cancel anytime.

Use your credit across every product. Compute, storage, AI, analytics. When it runs out, 20+ products stay free. You only pay when you choose to.

Start Free

Recommended Projects

picard
A set of tools for working with high-throughput sequencing data
FastQC
A quality control analysis tool for high throughput sequencing data
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
ClinQC
ClinQC: A tool for quality control of Sanger and NGS data in clinic
Apache Phoenix
Mirror of Apache Phoenix