nf-core/ltrharvest @ 0.0.0-0c7146d
Summary
Predicts LTR retrotransposons using the parallel version of GenomeTools gt-ltrharvest utility included in the EDTA toolchain
Get started
Add the following snippet to your workflow script to include this module.
include { LTRHARVEST } from 'nf-core/ltrharvest'
License
MIT License
Process
Name
|
LTRHARVEST |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
fasta
file
|
Input genome fasta *.{fsa,fa,fasta}
|
Output
3 channels
#1
scn
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.scn
file
|
Predicted LTR candidates in scn format *.scn
|
#2
gff3
tuple
meta
map
|
Groovy Map containing sample information e.g. |
|---|---|
*.gff3
file
|
Predicted LTR candidates in gff3 format *.gff3
|
#3
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| LTR_HARVEST_parallel | A Perl wrapper for LTR_harvest | https://github.com/oushujun/EDTA/tree/v2.2.0/bin/LTR_HARVEST_parallel |
| gt | The GenomeTools genome analysis system | https://genometools.org/index.html |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 135d883a43b1a2324b4112cd270cf22e20835533 |
| Release Date | 08 Apr 2026 18:52:43 (UTC) |
| Download URL | https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fltrharvest/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/ltrharvest/blobs/sha256:6ee966652a1979553ead989ed95c6cde9eb973e890a546c5b75a2c2d2274b0c0 |
| Size | 2.7 KB |
| Checksum | sha256:6ee966652a1979553ead989ed95c6cde9eb973e890a546c5b75a2c2d2274b0c0 |
| Downloads | 1 |
| Version | Date | Status | Downloads | Size | Diff |
|---|---|---|---|---|---|
| 0.0.0-0c7146d | 08 Apr 2026 18:52:43 (UTC) | 1 | 2.7 KB | - |