In the begining I want to say I am quite new to qiime2 and programming generally. I need to analyze 60 microbiome samples in Illumina pipeline, 2x250 paired end reads. The sequencing results I got in fastq.gz files. I used Trimmomatic for sequencing quality filtering. As its options predicted I obtained 4 output files: R1-paired, R2-paired, R1-unpaired, R2-unpaired. I am interested in both paired outputs.
From this moment I want to move to qiime2 to follow its analytical pipeline. I used “Moving Pictures” tutorial at first.
Importing files command:
qiime tools import
I am not sure whether it is a correct command to import trimmed reads to artefact.
The error I got was:
There was a problem importing FastQ/paired:
_ Missing one or more files for CasavaOneEightSingleLanePerSampleDirFmt: '.+_.+_L[0-9][0-9][0-9]_R001\.fastq\.gz’
Could you please suggest me any solution?