nf-core/ltrharvest @ 0.0.0-6c4ed3a
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 | 0.0.0-6c4ed3a |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 23 Apr 2026 15:28:08 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fltrharvest/0.0.0-6c4ed3a/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/ltrharvest/blobs/sha256:34f965caee13ec98cd2d88daf9a435b0ffd7e8df042f81ee6d0723b3a6733269 |
| Size | 2.7 KB |
| Checksum | sha256:34f965caee13ec98cd2d88daf9a435b0ffd7e8df042f81ee6d0723b3a6733269 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:28:08 (UTC) | 3 | 2.7 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:19:40 (UTC) | 2 | 2.7 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:14:41 (UTC) | 2 | 2.7 KB |