nf-core/abacas @ 0.0.0-0c7146d
Summary
Contiguate draft genome assembly
Get started
Add the following snippet to your workflow script to include this module.
include { ABACAS } from 'nf-core/abacas'
License
MIT License
Process
Name
|
ABACAS |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
scaffold
file
|
Fasta file containing scaffold *.{fasta,fa}
|
#2
tuple
meta2
map
|
Groovy Map containing genome information e.g. [ id:'fasta' ] |
|---|---|
fasta
file
|
FASTA reference file *.{fasta,fa}
|
Output
2 channels
#1
results
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test' ] |
|---|---|
${prefix}.*
file
|
List containing abacas output files [ '.abacas.bin', '.abacas.fasta', '.abacas.gaps', '.abacas.gaps.tab', '.abacas.nucmer.delta', '.abacas.nucmer.filtered.delta', '.abacas.nucmer.tiling', '.abacas.tab', '.abacas.unused.contigs.out', '.abacas.MULTIFASTA.fa' ] ${prefix}.*
|
#2
versions_abacas
tuple
${task.process}
string
|
The name of the process |
|---|---|
abacas
string
|
The name of the tool |
abacas.pl --version 2>&1 | grep 'ABACAS\.' | sed 's/ABACAS\.//' || true
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| abacas | ABACAS is intended to rapidly contiguate (align, order, orientate), visualize and design primers to close gaps on shotgun assembled contigs based on a reference sequence. | http://abacas.sourceforge.net/documentation.html |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:20:48 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fabacas/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/abacas/blobs/sha256:2e2a854196552ac2a680ea17121d7dc83f32dbc725a7e02576cf1dd46184d6b6 |
| Size | 3.0 KB |
| Checksum | sha256:2e2a854196552ac2a680ea17121d7dc83f32dbc725a7e02576cf1dd46184d6b6 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:20:48 (UTC) | 1 | 3.0 KB | - |