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Table 1 A list of resources

From: Harnessing microbiome and probiotic research in sub-Saharan Africa: recommendations from an African workshop

MIMARKS provides standards on how to collect and record data
Tutorial http://www.microbio.me/qiime/docs/tutorials/tutorial.html
Examples available at: http://www.microbio.me/qiime/
Register (free, 2-minute process) then retrieve hundreds of examples.
Tools ‘Omics’ data requires bioinformatic pipelines: QIIME, Mothur, LEfSe, MetaPhlAn, USEARCH, UPARSE, PandaSeq, and others. They are relatively complicated and non-intuitive, but the following sites are particularly helpful:
QIIME forum: https://groups.google.com/forum/#!forum/qiime-forum
Mothur: http://www.mothur.org/wiki/Main_Page
SeqAnswers: http://seqanswers.com/forums/index.php
StackExchange: http://biology.stackexchange.com/
Local clusters As ‘Omics’ tools require computational power, it may be feasible to have a local cluster through AWS Educational Grants: http://aws.amazon.com/education/, or partner with a bioinformatics lab such as via Project Rosalind: http://rosalind.info/about/ and Project Euler: http://projecteuler.net/
Sample collection and processing protocols, bioinformatics pipelines and technical information EMP: http://www.earthmicrobiome.org/emp-standard-protocols/
HMP: http://www.hmpdacc.org/
QIIME/Mothur workshops online as above, and distance workshops such as:
STAMPS: http://hermes.mbl.edu/education/courses/special_topics/stamps.html
QIIME tutorials: https://www.qiime.org/tutorials
Software Carpentry: http://software-carpentry.org/
NGS overviews: http://informaticstraining.hms.harvard.edu/
Open courses Open courses are also available: Coursera: https://www.coursera.org/, such as Biostatistics boot camp, Machine learning, Bioinformatics methods with an MIT site being helpful. http://ocw.mit.edu/index.htm