dada2
Description¶
Infer Amplicon Sequence Variants (ASVs) from amplicon reads using DADA2 package
Keywords: microbial taxonomy, amplicon sequence variant (asv), amplicon sequencing, error correction, denoising
Installation¶
nf-core modules -g https://www.github.com/ebi-metagenomics/nf-modules install dada2
Tools¶
dada2¶
DADA2: High-resolution sample inference from Illumina amplicon data
Input¶
| Name | Type | Description | Pattern |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ] |
- |
reads |
file | Reads after QC and filtering | *.fastq |
Output¶
| Name | Type | Description | Pattern |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ] |
- |
versions |
file | File containing software versions | versions.yml |
dada2_out |
file | Fasta file with ASV sequences | *asvs.fasta |
dada2_asv_counts |
file | Counts for unique ASV sequences | *asv_counts.tsv |
People¶
Authors¶
Maintainers