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FastQC是评价基因数据质量的软件。
1.下载:
http://www.bioinformatics.babraham.ac.uk/projects/download.html#fastqc
2.解压配置:
unzip
配置:
ln -s /path/to/FastQC/fastqc /usr/local/bin/fastqc
参考【1】
3.运行:
xubo@xubo:~/cloud/FastQC$ sudo ln -s ~/cloud/FastQC/fastqc /usr/local/bin/fastqc
xubo@xubo:~/cloud/FastQC$ ls
Contaminants example1.R.fq fastqc_icon.ico INSTALL.txt LICENSE.txt RELEASE_NOTES.txt sam-1.32.jar uk
example1.L.fq fastqc Help jbzip2-0.9.jar README.txt run_fastqc.bat Templates
xubo@xubo:~/cloud/FastQC$ fastqc example1.*
Started analysis of example1.L.fq
Approx 5% complete for example1.L.fq
Approx 10% complete for example1.L.fq
Approx 15% complete for example1.L.fq
Approx 20% complete for example1.L.fq
Approx 25% complete for example1.L.fq
Approx 30% complete for example1.L.fq
Approx 35% complete for example1.L.fq
Approx 40% complete for example1.L.fq
Approx 45% complete for example1.L.fq
Approx 50% complete for example1.L.fq
Approx 55% complete for example1.L.fq
Approx 60% complete for example1.L.fq
Approx 65% complete for example1.L.fq
Approx 70% complete for example1.L.fq
Approx 75% complete for example1.L.fq
Approx 80% complete for example1.L.fq
Approx 85% complete for example1.L.fq
Approx 90% complete for example1.L.fq
Approx 95% complete for example1.L.fq
Approx 100% complete for example1.L.fq
Analysis complete for example1.L.fq
Started analysis of example1.R.fq
Approx 5% complete for example1.R.fq
Approx 10% complete for example1.R.fq
Approx 15% complete for example1.R.fq
Approx 20% complete for example1.R.fq
Approx 25% complete for example1.R.fq
Approx 30% complete for example1.R.fq
Approx 35% complete for example1.R.fq
Approx 40% complete for example1.R.fq
Approx 45% complete for example1.R.fq
Approx 50% complete for example1.R.fq
Approx 55% complete for example1.R.fq
Approx 60% complete for example1.R.fq
Approx 65% complete for example1.R.fq
Approx 70% complete for example1.R.fq
Approx 75% complete for example1.R.fq
Approx 80% complete for example1.R.fq
Approx 85% complete for example1.R.fq
Approx 90% complete for example1.R.fq
Approx 95% complete for example1.R.fq
Approx 100% complete for example1.R.fq
Analysis complete for example1.R.fq
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4.查看:
可以将数据下载或者cp到/var/www/html,通过网站查看:
http://219.219.220.222/example1.L.fq_fastqc/fastqc_data.txt
http://219.219.220.222/example1.L.fq_fastqc/fastqc_report.html
5.报告理解:
请参考【2】
参考
【1】 http://www.bioinformatics.babraham.ac.uk/projects/fastqc/INSTALL.txt
【2】http://www.plob.org/2013/07/16/5987.html
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