Hi thermokarst I am trying to use "trim-paired" to remove 5-end primers from my reads before proceding With further analysis in q2. My dataset is imported into an artefact "paired-end-demux.qza", but when I try to run cutadapt With the following code: qiime cutadapt trim-paired --i-demultiplexed-se…

Hi @Roger_Meisal , [image] Roger_Meisal: i get the folloving error: --p-front-f: command not found That's really strange, you've got the backslash in your command \, so it shouldn't be trying to execute the next line a command on its own, rather it should be appended onto the last line. Coul…

I finally figured this one out. It was a silly extra space after the . my code is now working and the "file:path.fasta" Method to feed the adapters to qiime worked too. the "--verbose" output now uses the name and sequence of the adapters. Maybe the qiime team should implement some visualization …

Hey @Roger_Meisal ! [image] Roger_Meisal: my code is now working and the “file:path.fasta” Method to feed the adapters to qiime worked too. Oh! That is surprising, glad you've got what you need. [image] Roger_Meisal: Maybe the qiime team should implement some visualization on the adapter…

Command not found using q2-cutadapt

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ebolyen (Evan Bolyen) April 9, 2018, 6:35pm 7

Hey @Roger_Meisal!

Oh! That is surprising, glad you've got what you need.

That's actually on our list!