nf-core/emu/abundance @ 0.0.0-6c4ed3a
Summary
A taxonomic profiler for metagenomic 16S data optimized for error prone long reads.
Get started
Add the following snippet to your workflow script to include this module.
include { EMU_ABUNDANCE } from 'nf-core/emu/abundance'
License
MIT License
Name
|
EMU_ABUNDANCE |
|---|
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
reads
file
|
fastq.gz file containing 16S metagenomics data *.{fastq.gz}
|
db
directory
|
Emu database |
|---|
report
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}_rel-abundance.tsv
file
|
Output file containing relative abundances for reads *{.tsv}
|
samfile
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}_emu_alignments.sam
file
|
Sam alignment file *{.sam}
|
unmapped
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}_unmapped.*
file
|
Output file with unmapped sequences *{.fasta,.fastq}
|
unclassified
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}_unclassified_mapped.*
file
|
Output file with unclassified sequences *{.fasta,.fastq}
|
versions_emu
tuple
${task.process}
string
|
The process the versions were collected from |
|---|---|
emu
string
|
The tool name |
emu --version 2>&1 | sed "s/^.*emu //; s/Using.*$//"
eval
|
The expression to obtain the version of the tool |
assignment_report
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
${prefix}_read-assignment-distributions.tsv
file
|
Output file with read assignment distributions. *{.tsv}
|
| Tool | Description | Homepage |
|---|---|---|
| emu | Emu is a relative abundance estimator for 16s genomic data. | https://gitlab.com/treangenlab/emu |
| Version | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:14:53 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Femu%2Fabundance/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/emu/abundance/blobs/sha256:76f073e04f96c5ed37c84aa5de3b20643a6640ebd125edf5dca2bdaeb3834deb |
| Size | 3.1 KB |
| Checksum | sha256:76f073e04f96c5ed37c84aa5de3b20643a6640ebd125edf5dca2bdaeb3834deb |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:14:53 (UTC) | 3 | 3.1 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 18:58:35 (UTC) | 3 | 3.1 KB |