BWA and Bowtie
2017-03-02 20:50
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BWA——Burrows-Wheeler Aligner
Installation
下载:http://sourceforge.net/projects/bio-bwa/files/压缩文件
解压缩:$tar xvfj bwa-0.7.12.tar.bz2
转至目录:$cd bwa-0.7.12
编译:$make
测试:$./bwa #正常情况下会出现帮助信息
Run
1.获取参考基因组;
2.建立参考基因组的索引:$nohup ../tools/bwa-0.7.12/bwa index
Arabidopsis_thaliana.TAIR10.21.dna.genome.fa &;
#设置可执行程序路径
#建立索引的参数 #参考基因组
3.获取DNA序列reads;
4.把DNA序列reads给Map到参考基因组上:
$nohup ../tools/bwa-0.7.12/bwa mem Arabidopsis_thaliana.TAIR10.21.dna.genome.fa ../Arabidopsischipdata/SRR651185.fastq > SRR651185.sam &;
#所用算法
#参考基因组索引的路径设置
#DNA测序reads路径设置
#输出文件
Installation
下载:http://sourceforge.net/projects/bio-bwa/files/压缩文件
解压缩:$tar xvfj bwa-0.7.12.tar.bz2
转至目录:$cd bwa-0.7.12
编译:$make
测试:$./bwa #正常情况下会出现帮助信息
Run
1.获取参考基因组;
2.建立参考基因组的索引:$nohup ../tools/bwa-0.7.12/bwa index
Arabidopsis_thaliana.TAIR10.21.dna.genome.fa &;
#设置可执行程序路径
#建立索引的参数 #参考基因组
3.获取DNA序列reads;
4.把DNA序列reads给Map到参考基因组上:
$nohup ../tools/bwa-0.7.12/bwa mem Arabidopsis_thaliana.TAIR10.21.dna.genome.fa ../Arabidopsischipdata/SRR651185.fastq > SRR651185.sam &;
#所用算法
#参考基因组索引的路径设置
#DNA测序reads路径设置
#输出文件
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