Tutorials and sample data
Let me know if your data is different from these examples, I'll be glad to help you figure out how to modify the scripts.
See also
Illumina unpaired reads of variable-length amplicons
| Tutorial | Tag | Reads | Samples |
|
Misop Part 1: UPARSE & UNOISE (generate OTU table) Part 2: Mock community analysis (stringent) Part 3: Mock community analysis (less stringent) Part 4: Read quality and error rate analysis |
16S V4 |
MiSeq 2x250 PE |
Mouse feces and mock community. |
|
HMP Part 1. UPARSE pipeline (reads to OTU table) Part 2. Implementing the pipeline script |
16S V3-V5 |
454 Titanium |
Human Microbiome Project human body sites. |
|
Extut: comparing UPARSE and UNOISE on species
>97% similar |
16S V4 |
MiSeq 2x250 PE |
DADA2 "Extreme" mock community |
|
Misits Part1. UPARSE & UNOISE pipelines) |
ITS2 |
MiSeq 2x300 PE |
Fungi extracted from pine needles. |