FastqCount (https://github.com/zhimenggan/FastqCount)主要用来计算fastq文件的reads数量、base数、Q20和Q30等指标，同时需要配合pigz一起来使用。
1. install pigz
conda install pigz
2.install FastqCount
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| #down fron github
wget https://github.com/zhimenggan/FastqCount/archive/refs/heads/master.zip
cd FastqCount-master/
chmod 755 FastqCount_v0.5
#add FastqCount_v0.5 to PATH
cp FastqCount_v0.5 ~/biobin
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3.process FastqCount
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| #for single fastq
FastqCount_v0.5 input.fastq
#for paired fastq
pigz -dc Y31_1.fq.gz Y31_2.fq.gz | FastqCount_v0.5 - > Y31.seq.out
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4.result
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| Total Reads Total Bases N Bases Q20 Q30 GC
2024523950 (2024.52 M) 282606494306 (282.61 G) 0.00% 98.00% 93.00% 35.00%
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