测序数据快速质控软件-fastp

安装

###one###
#note: the fastp version in bioconda may be not the latest
$conda install -c bioconda fastp
###two###
#this binary was compiled on CentOS, and tested on CentOS/Ubuntu
$wget http://opengene.org/fastp/fastp
$chmod a+x ./fastp
###three###
#zlip
$wget http://www.zlib.net/zlib-1.2.8.tar.gz
$tar -xvzf zlib-1.2.8.tar.gz
$cd zlib-1.2.8.tar.gz
$./configure
$make
$make install
# get source (you can also use browser to download from master or releases)
$git clone https://github.com/OpenGene/fastp.git
# build
$cd fastp
$make

使用

#简单的使用
#单端测序single end(SE)
fastp -i in.fq -o out.fq
#双端测序paired end(PE)
fastp -i in.R1.fq.gz -I in.R2.fq.gz -o our.R1.fq.gz -O  out.R2.fq.gz