安装环境
Ubuntu18.10
ART-bin-MountRainier-2016.06.05-Linux64
安装过程
1、从ART - Set of Simulation Tools下载安装包。
https://www.niehs.nih.gov/research/resources/assets/docs/artbinmountrainier2016.06.05linux64.tgz
2将安装包sudo mv artbinmountrainier2016.06.05linux64.tgz -t /opt
3.然后
cd /opt
tar xzvf artbinmountrainier2016.06.05linux64.tgz
echo "export PATH=\$PATH:/opt/art_bin_MountRainier" >> ~/.bashrc
source ~/.bashrc
art_illumina
这里就安装完毕了。
简单试用
输入14kB模拟数据example.fa
art_illumina -ss HS25 -i ./example.fa -o ./paired_end_com -l 150 -f 10 -p -m 500 -s 10 -sam
控制台输出结果为
ubuntu@VM-16-5-ubuntu:~$ art_illumina -ss HS25 -i ./example.fa -o ./paired_end_com -l 150 -f 10 -p -m 500 -s 10 -sam
====================ART====================
ART_Illumina (2008-2016)
Q Version 2.5.8 (June 7, 2016)
Contact: Weichun Huang <[email protected]>
-------------------------------------------
Paired-end sequencing simulation
Total CPU time used: 0.01
The random seed for the run: 1637467638
Parameters used during run
Read Length: 150
Genome masking 'N' cutoff frequency: 1 in 150
Fold Coverage: 10X
Mean Fragment Length: 500
Standard Deviation: 10
Profile Type: Combined
ID Tag:
Quality Profile(s)
First Read: HiSeq 2500 Length 150 R1 (built-in profile)
First Read: HiSeq 2500 Length 150 R2 (built-in profile)
Output files
FASTQ Sequence Files:
the 1st reads: ./paired_end_com1.fq
the 2nd reads: ./paired_end_com2.fq
ALN Alignment Files:
the 1st reads: ./paired_end_com1.aln
the 2nd reads: ./paired_end_com2.aln
SAM Alignment File:
./paired_end_com.sam
输出文件如下：
art_illumina_result.png
