Dada2 parameter for pair end reads

[Nicholas_Bokulich]

Hi @Yogesh_Gupta,

@Yogesh_Gupta

Invalid DISPLAY variable

The solution has been reported here:

Error in qiime feature-table summarize

Good morning, When trying to summarize a merged table from 4 denoised sequence variant data I got the following error: What is this DISPLAY variable? And how can I fix it? Thank you! (qiime2) ekg43@thompson:~/SCC/Dada$ qiime feature-table summarize --i-table table1234.qza --o-visualization table1234 Traceback (most recent call last): File "/home/ekg43/miniconda3/envs/qiime2/bin/qiime", line 6, in <module> sys.exit(q2cli.__main__.qiime()) File "/home/ekg43/miniconda3/envs/qiime2/lib/p…

@Yogesh_Gupta

before running dada2, How I can decide the correct parameter for

You are on the right track, using demux-summarize to look at quality scores. See the tutorials here and the many posts on this forum for more advice on setting truncation lengths.

Good luck!