nf-core/abacas @ 0.0.0-0c7146d
Contiguate draft genome assembly
| 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 |
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 |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 0c7146d85582628b5d1034504702fa808632b1af |
| Release Date | 08 Apr 2026 18:41:09 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fabacas/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/abacas/blobs/sha256:85af3ae52231b155fe756df4a0945f70c2e80a704b411fb5f5211e7247974e54 |
| Size | 3.0 KB |
| Checksum | sha256:85af3ae52231b155fe756df4a0945f70c2e80a704b411fb5f5211e7247974e54 |
| Downloads | 4 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:41:09 (UTC) | PUBLISHED | 4 | 3.0 KB |