fastqutils
Description¶
fastq_utils is a set of Linux utilities to validate and manipulate fastq files.
Keywords: fastq, qc, sequencing
Installation¶
nf-core modules -g https://www.github.com/ebi-metagenomics/nf-modules install fastqutils
Tools¶
fastqutils¶
Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.
Input¶
| Name | Type | Description | Pattern |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ] |
- |
fastq |
file | Fastq file(s) to be validated. If paired-end, expects both forward and reverse files. | *.{fastq,fastq.gz} |
Output¶
| Name | Type | Description | Pattern |
|---|---|---|---|
meta |
map | Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ] |
- |
sanity |
file | Text file containing either "OK" if all sanity checks passed, or an error message describing the issue with the given fastq file(s) | *.txt |
versions |
file | File containing software versions | versions.yml |
People¶
Authors¶
Maintainers