Tag Archives: qiime

Reference ITSdb for QIIME released

Good news!

An alpha version of the ITS reference database for use with QIIME was released this week as part of the QIIME team development. There are more details on the release and how to obtain it from the project’s post here.

Please note that this is an Alpha release and may not be completely consistent, but the team wants to make something available now to give people a starting DB for use of QIIME and ITS data.  Parameters will need to be modified from the defaults, so watch the QIIME space, and we are working on a best practices document in the lab here to help ease the training in this.

All the data are also in a github repository and this is built starting from the database provided and curated by the UNITE team. I love that the data are getting version controlled here so it is easy to look at versions and revisions.

Fungal ITS database workshop

We held a workshop last for some of the people using and developing tools and databases for fungal molecular ecology in Fungi in (beautiful) Boulder, CO last week as part of our efforts in the Microbiome of the Built Environment. I am working with my co-organizer and participants to prepare a meeting summary and some descriptions of concrete plans forward. We expect this to make it easier to analyze Fungal ITS sequences in tools like QIIME and provide linkage with resources built around phylogenetic analyses of Fungi. An longer meeting summary will be posted in the coming week after we have all the presentations gathered and the details of the meeting written out.