Exome 解析に使うツール群のリンク

  • FastQC

http://www.bioinformatics.bbsrc.ac.uk/projects/fastqc/

  • FASTX-Toolkit

http://hannonlab.cshl.edu/fastx_toolkit/

  • Burrows-Wheeler Aligner

http://bio-bwa.sourceforge.net/
https://github.com/lh3/bwa

git clone https://github.com/lh3/bwa.git

  • SAMtools

http://samtools.sourceforge.net/

svn co https://samtools.svn.sourceforge.net/svnroot/samtools/trunk/samtools

  • Picard

http://picard.sourceforge.net/

svn co https://picard.svn.sourceforge.net/svnroot/picard/trunk picard

  • bedtools - bedtools: a flexible suite of utilities for comparing genomic features.

http://code.google.com/p/bedtools/
https://github.com/arq5x/bedtools

git clone https://github.com/arq5x/bedtools.git

http://www.openbioinformatics.org/annovar/
作者にメールする必要がある

  • GATK

http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit

git clone https://github.com/broadgsa/gatk.git

  • Dindel: Accurate indel calls from short-read data - Wellcome Trust Sanger Institute

http://www.sanger.ac.uk/resources/software/dindel/

wget -r -np -nd ftp://ftp.sanger.ac.uk/pub4/resources/software/dindel -P dindel

その他

TruSeq Exome 関連