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Zeller Group
metaG_course
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2a7ae41a
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2a7ae41a
authored
5 years ago
by
Jakob Wirbel
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# Functional metagenome profiling
6.
**lecture**
on gene catalogues, HMMs, functional profiling, eggnog
_(Laura: 45 min)_
6.
**lecture**
: functional metagenomic profiling
7.
**demonstration**
: mapping to gene catalogues
_(Laura/Jakob: 30 min, ngless -> conda, perhaps on Rhine? Would require ssh/logins)_
7.
**demonstration**
: mapping to gene catalogues with ngless
8.
**practical**
: visually explore KEGG maps and pathways
_(Laura/Jakob/Nic: 30 min, heatmap, iPATH? Jakob/Laura: checkout iPATH3)_
8.
**practical**
: explore KEGG KOs and modules
9.
**practical**
: build HMM for toxins, annotate gene catalogue/hmmsearch,
metagenomic cutoffs, quantification/vis
_(Laura/Nic: 1.5h)_
____
buffer 15 min (in the worst case 45 min until 18:00)
total: 3.5 h
13:30 - 17:30 (incl 30 min coffee break)
9.
**practical**
: build HMM for toxins
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