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edna
exploitation
eDNA_intra_pipeline_comparison
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0386a574
Commit
0386a574
authored
Jul 29, 2021
by
Bastien Macé
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c6ac16d1
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README.md
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0386a574
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@@ -247,6 +247,8 @@ obiclean -r 0.05 -H Aquarium_2.fasta > Aquarium_2.clean.fasta
# here, the command only returns only the sequences tagged "head" by the algorithm, and the chosen ratio is 0.05
```
For more details on this OBITOOLS processing step, see the original publication
[
here
](
https://doi.org/10.1111/1755-0998.12428
)
.
<a
name=
"step22"
></a>
### IV - 2 - DADA2 processing step (Pipelines B)
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@@ -273,6 +275,8 @@ uniquesToFasta(uniqueSeqs, paste0("PipelineB_", sample.names[k], ".fasta"))
# creates a new ".fasta" file constaining the ASVs
```
For more details on this DADA2 processing step, see the original publication
[
here
](
https://doi.org/10.1038/nmeth.3869
)
.
<a
name=
"step23"
></a>
### IV - 3 - SWARM processing step (Pipelines C)
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