Hello, I am a student studying bioinformatics.
I'm getting a strange error while demultiflexing using a paired-end fastq file.
The quality plot graph keeps coming out strangely like this.
The command I used is:
qiime tools import --type 'SampleData[PairedEndSequencesWithQuality]' --input-path "./manifest.csv" --output-path ./demux.qza --input-format PairedEndFastqManifestPhred33
qiime demux summarize --i-data demux.qza --o-visualization ./demux.qzv
The contents of the manifest file :
sample-id,absolute-filepath,direction
sample1,$PWD/A21_S14_L001_R1_001.fastq.gz,forward
sample1,$PWD/A21_S14_L001_R2_001.fastq.gz,reverse
sample2,$PWD/A22_S15_L001_R1_001.fastq.gz,forward
sample2,$PWD/A22_S15_L001_R2_001.fastq.gz,reverse
sample3,$PWD/A23_S16_L001_R1_001.fastq.gz,forward
sample3,$PWD/A23_S16_L001_R2_001.fastq.gz,reverse
sample4,$PWD/A24_S17_L001_R1_001.fastq.gz,forward
sample4,$PWD/A24_S17_L001_R2_001.fastq.gz,reverse
sample5,$PWD/A31_S18_L001_R1_001.fastq.gz,forward
sample5,$PWD/A31_S18_L001_R2_001.fastq.gz,reverse
sample6,$PWD/A33_S19_L001_R1_001.fastq.gz,forward
sample6,$PWD/A33_S19_L001_R2_001.fastq.gz,reverse
how can i fixit?