nf-core/picard/fastqtosam @ 0.0.0-0c7146d
Summary
Converts a FASTQ file to an unaligned BAM or SAM file.
Get started
Add the following snippet to your workflow script to include this module.
include { PICARD_FASTQTOSAM } from 'nf-core/picard/fastqtosam'
License
MIT License
Process
Name
|
PICARD_FASTQTOSAM |
|---|
Input
1 channel
#1
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
reads
file
|
List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively. |
Output
2 channels
#1
bam
tuple
meta
map
|
Groovy Map containing sample information e.g. [ id:'test', single_end:false ] |
|---|---|
*.bam
file
|
Unaligned bam file *.{bam}
|
#2
versions_picard
tuple
${task.process}
string
|
The process the versions were collected from |
|---|---|
picard
string
|
The tool name |
picard FastqToSam --version 2>&1 | sed -n 's/.*Version://p'
string
|
The command used to generate the version of the tool |
| Tool | Description | Homepage |
|---|---|---|
| picard | A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF. | https://broadinstitute.github.io/picard/ |
| Version | 0.0.0-0c7146d |
|---|---|
| Commit ID | 6c4ed3a220310b905a1fc9d04f05be2e0837142b |
| Release Date | 08 Apr 2026 19:25:44 (UTC) |
| Download URL | https://registry.nextflow.io/api/v1/modules/nf-core%2Fpicard%2Ffastqtosam/0.0.0-0c7146d/download |
| OCI Store URL | https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/picard/fastqtosam/blobs/sha256:d0d37690a19feab5e7370620f8c16a0ca8dfadf592c1a7948062ded062acf252 |
| Size | 3.0 KB |
| Checksum | sha256:d0d37690a19feab5e7370620f8c16a0ca8dfadf592c1a7948062ded062acf252 |
| Downloads | 3 |
| Version | Date | Status | Downloads | Size |
|---|---|---|---|---|
| 0.0.0-6c4ed3a | 23 Apr 2026 15:36:05 (UTC) | 3 | 3.1 KB | |
| 0.0.0-0c7146d | 08 Apr 2026 19:25:44 (UTC) | 3 | 3.0 KB |