Importing data from ion-torrent run

[Manoj (Manoj Kumar)]

Hi,

I only started working on QIIME2 recently and have a question regarding importing data in to QIIME 2. I used to work on Qiime and I find it very difficult to do that in Qiime2.

I ran 96 samples with both 16s and ITS primers. I got a single fastq file from the sequencing provider and would like some advise to import the data.

Kindly advise.

Cheers,
Manoj

[Mdavrandi (Mehmet Davrandi)]

Hi Manoj,

I recently had a similar problem. My solution is below:

Importing 454 data to run dada2 denoise-pyro

Thanks @Nicholas_Bokulich. Thats exactly where I got stuck, though I finally managed to work it out by doing the following: Demultiplexed data in QIIME 1; split_libraries.py -m region1_map.txt -f 454/1.TCA.454Reads.fna -q 454/1.TCA.454Reads.qual -b 10 -L 500 -l 380 -d --record_qual_scores -n 1000000 -o region1_w_Q_split_library Merged resulting .fna and .qual files by convert_fastaqual_fastq.py -f 454/region1_w_Q_split_library/seqs.fna -q 454/region1_w_Q_split_library/seqs_filt…

Hope this helps

Best
Mehmet

[Nicholas_Bokulich]

@Manoj

I got a single fastq file from the sequencing provider and would like some advise to import the data.

depending on where the barcodes are, it sounds like you should follow this tutorial.

Good luck!