RE: Importing/converting (.SFF) to (FASTA, QUAL ,flowgram) using QIIME2

[nietof (Fernando Nieto)]

Hi Mathew
Happy New Year!
does the latest version of qiime2 support 454 sequence data?
Is the best option still to use qiime?
thank you
Fernando

Importing/converting (.SFF) to (FASTA, QUAL ,flowgram) using QIIME2

Thanks @pjtorres! @tlaw, we don’t currently support 454 data, but as @pjtorres suggests, you could process these data with QIIME 1 and then import into QIIME 2, if you are looking to get moving on analysis now. Otherwise, we will update this forum post as we begin to provide direct 454 support in QIIME 2. Thanks!

[andrewsanchez]

Hi @nietof,

The dada2 plugin has a denoise-pyro method. This method requires a SampleData[SequencesWithQuality] artifact, so you will need to get your data into that format first, which may still require an initial step involving QIIME 1. There are some discussions here on the forum which you can read up on about that. If you search the forum for something like “454 pyro,” you will find some helpful posts such as this one. Feel free to follow up here if you anything is unclear after reading other discussions about this.