nf-core/upp/align @ 0.0.0-0c7146d
Summary
Aligns protein structures using UPP
Get started
Add the following snippet to your workflow script to include this module.
include { UPP_ALIGN } from 'nf-core/upp/align'
License
MIT License
Name
|
UPP_ALIGN |
|---|
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
fasta_unaligned
file
|
Unaligned sequence file. If no backbone tree nor alignment is given, the sequence file will be randomly split into a backbone set and query set *.{fa,fna,faa,fasta}
|
fasta_aligned
file
|
Aligned sequence file. (optional) *.{fa,fna,faa,fasta,aln}
|
meta2
map
|
Groovy Map containing tree information e.g. |
|---|---|
tree
file
|
Input guide tree, in Newick format. *.{dnd}
|
compress
boolean
|
Flag representing whether the output MSA should be compressed. Set to true to enable/false to disable compression. |
|---|
alignment
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.aln{.gz,}
file
|
Alignment file, in FASTA format. May be gzipped or uncompressed, depending on if compress is set to true or false *.aln{.gz,}
|
versions_sepp
tuple
${task.process}
string
|
The name of the process |
|---|---|
sepp
string
|
The name of the tool |
run_upp.py -v | grep "run_upp" | cut -f2 -d" "
eval
|
The expression to obtain the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| upp | SATe-enabled phylogenetic placement | https://github.com/smirarab/sepp/tree/master |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 19:45:14 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fupp%2Falign/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/upp/align/blobs/sha256:915d2f98800559a6501a50f95f71475103d719837df7ff9f1c5852c87f317821 |
| Size | 3.1 KB |
| Checksum | sha256:915d2f98800559a6501a50f95f71475103d719837df7ff9f1c5852c87f317821 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:51:34 (UTC) | 3 | 3.1 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:35:59 (UTC) | 3 | 3.1 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:45:14 (UTC) | 3 | 3.1 KB |