软件下载

虽然在Korf Lab的官网上提供最新版本(latest release 11/29/2013)的下载，但此版本在本机(CENTOS 6.9, GCC )编译时出现错误，改而从github站点下载，成功完成编译。

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git clone https://github.com/KorfLab/SNAP.git
cd SNAP
make -j 4
echo 'PATH=$PATH:~/opt/SNAP' >> ~/.bashrc
source ~/.bashrc

SNAP Training 需要旧版本EVM提供的一支程序将GFF3文件转换为ZFF格式。

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cd ~/software
wget https://ayera.dl.sourceforge.net/project/evidencemodeler/OLD_CONTENT/evidencemodeler/EVM_r2012-06-25.tgz
tar zxf EVM_r2012-06-25.tgz -C ~/opt/

SNAP Training

转换ZFF文件

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export PERL5LIB=$PERL5LIB:~/opt/EVM_r2012-06-25/PerlLib/
~/opt/EVM_r2012-06-25/OtherGeneFinderTrainingGuide/SNAP/gff3_to_SNAP_train.pl species.gff3 species_genome.fasta

参考来源

https://github.com/KorfLab/SNAP