FastQC -- 结果文件

以A01样本为例， Pair-End

(metadenovo) [Mb18@comput44 TESTA01]$ ls 1_rawdata/
A01_R1.fq.gz  A01_R2.fq.gz

threads=8
sample=A01
fastqc -t ${threads} 1_rawdata/${sample}_*.fq.gz

运行结果时的log

(metadenovo) [Mb18@comput44 TESTA01]$ fastqc -t ${threads} 1_rawdata/${sample}_*.fq.gz
Started analysis of A01_R1.fq.gz
Approx 5% complete for A01_R1.fq.gz
Started analysis of A01_R2.fq.gz
Approx 5% complete for A01_R2.fq.gz
Approx 10% complete for A01_R1.fq.gz
Approx 15% complete for A01_R1.fq.gz
Approx 10% complete for A01_R2.fq.gz
Approx 15% complete for A01_R2.fq.gz
Approx 20% complete for A01_R1.fq.gz
Approx 25% complete for A01_R1.fq.gz
Approx 20% complete for A01_R2.fq.gz
Approx 30% complete for A01_R1.fq.gz
Approx 25% complete for A01_R2.fq.gz
Approx 30% complete for A01_R2.fq.gz
Approx 35% complete for A01_R1.fq.gz
Approx 35% complete for A01_R2.fq.gz
Approx 40% complete for A01_R1.fq.gz
Approx 40% complete for A01_R2.fq.gz
Approx 45% complete for A01_R1.fq.gz
Approx 45% complete for A01_R2.fq.gz
Approx 50% complete for A01_R1.fq.gz
Approx 50% complete for A01_R2.fq.gz
Approx 55% complete for A01_R2.fq.gz
Approx 55% complete for A01_R1.fq.gz
Approx 60% complete for A01_R2.fq.gz
Approx 60% complete for A01_R1.fq.gz
Approx 65% complete for A01_R2.fq.gz
Approx 65% complete for A01_R1.fq.gz
Approx 70% complete for A01_R2.fq.gz
Approx 75% complete for A01_R2.fq.gz
Approx 70% complete for A01_R1.fq.gz
Approx 80% complete for A01_R2.fq.gz
Approx 75% complete for A01_R1.fq.gz
Approx 85% complete for A01_R2.fq.gz
Approx 80% complete for A01_R1.fq.gz
Approx 90% complete for A01_R2.fq.gz
Approx 85% complete for A01_R1.fq.gz
Approx 95% complete for A01_R2.fq.gz
Approx 90% complete for A01_R1.fq.gz
Analysis complete for A01_R2.fq.gz
Approx 95% complete for A01_R1.fq.gz
Analysis complete for A01_R1.fq.gz

• 使用安静模式运行，则不会由上述的log提示

threads=8
sample=A01
fastqc -t ${threads} 1_rawdata/${sample}_*.fq.gz --quiet

• 运行后生成的结果文件

(metadenovo) [Mb18@comput44 TESTA01]$ ls 1_rawdata/
A01_R1_fastqc.html  A01_R1_fastqc.zip  A01_R1.fq.gz  A01_R2_fastqc.html  A01_R2_fastqc.zip  A01_R2.fq.gz

其中，A01_R1_fastqc.html A01_R1_fastqc.zip A01_R2_fastqc.html A01_R2_fastqc.zip 是运行后生成的结果文件。

解压其中一个zip文件打开

• A01_R1_fastqc.zip

  
  A01_R1_fastqc.zip

• fastqc_data.txt

  
  fastqc_data.txt

• image

  
  image.png

后续，就可以将fastqc_data.txt 和 image/下的相关结果，展示在你的报告中了。