Hello QIIME2 users,
I beginner working on bioinformatics. I am planning to use QIIME2 for 16S rRNA sequencing analysis (bacterial composition, bacterial diversity, etc.).
I have 15 .fastq sequences files, were obtained from Ion 16S Metagenoimics kit with Ion Torrent machine as following:
I imported .fastq files to QIIME2 followed the Ion Torrent Importing data by using “Fastq manifest” formats and now I got .qza file.
I have used this command line for import:
qiime tools import
After importing data, I checked peek:
qiime tools peek single-end-demux.qza
Data format: SingleLanePerSampleSingleEndFastqDirFmt
Then I will process to check sequence quality control by using
quality-filter q-score-joined but I got an error message. What wrong in this step? and would like some advice?
I have used this for check quality-filter:
qiime quality-filter q-score-joined
In addition, I am trying to denoise with q2-deblur,
qiime deblur denoise-16S, followed Ion Torrent data denoise with dada2 but I got error from deblur.
How to proceed further in this case?
Please give more information and suggestion.