nf-core/ivar/trim @ 0.0.0-3fc6d40
Summary
Trim primer sequences rom a BAM file with iVar
Get started
Add the following snippet to your workflow script to include this module.
include { IVAR_TRIM } from 'nf-core/ivar/trim'
License
MIT License
Process
Name
|
IVAR_TRIM |
|---|
Input
2 channels
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
bam
file
|
Co-ordinate sorted BAM file *.bam
|
bai
file
|
Index file for co-ordinate sorted BAM file *.bai
|
bed
file
|
BED file with primer labels and positions *.bed
|
|---|
Output
3 channels
#1
bam
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.bam
file
|
iVar generated trimmed bam file (unsorted) *.bam
|
#2
log
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.log
file
|
Log file generated by iVar for use with MultiQC *.log
|
#3
versions
versions.yml
file
|
File containing software versions versions.yml
|
|---|
| Tool | Description | Homepage |
|---|---|---|
| ivar | iVar - a computational package that contains functions broadly useful for viral amplicon-based sequencing. | https://github.com/andersen-lab/ivar |
| Version | 0.0.0-3fc6d40 |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 22 Apr 2026 15:18:15 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fivar%2Ftrim/0.0.0-3fc6d40/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/ivar/trim/blobs/sha256:5a964941484791a8fdd0b6cfa479d8ad8376ab41bdbbd1bca33f9214f31dd3bb |
| Size | 2.5 KB |
| Checksum | sha256:5a964941484791a8fdd0b6cfa479d8ad8376ab41bdbbd1bca33f9214f31dd3bb |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:26:13 (UTC) | 4 | 2.4 KB | |
| 0.0.0-3fc6d40 | 22 Apr 2026 15:18:15 (UTC) | 3 | 2.5 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:11:15 (UTC) | 4 | 2.4 KB |