diff --git a/README.md b/README.md index f647af0..6cf36dc 100644 --- a/README.md +++ b/README.md @@ -31,8 +31,9 @@ workflows use the "tube map" design for that. See https://nf-co.re/docs/contributing/design_guidelines#examples for examples. --> -1. Read QC ([`FastQC`](https://www.bioinformatics.babraham.ac.uk/projects/fastqc/)) -2. Present QC for raw reads ([`MultiQC`](http://multiqc.info/)) +1. Subsample reads ([`Seqtk`](https://github.com/lh3/seqtk)) +2. Read QC ([`FastQC`](https://www.bioinformatics.babraham.ac.uk/projects/fastqc/)) +3. Present QC for raw reads ([`MultiQC`](http://multiqc.info/)) ## Usage diff --git a/workflows/seqinspector.nf b/workflows/seqinspector.nf index 972b2f3..2fbb234 100644 --- a/workflows/seqinspector.nf +++ b/workflows/seqinspector.nf @@ -33,7 +33,7 @@ workflow SEQINSPECTOR { ch_multiqc_reports = Channel.empty() // - // MODULE: Run Seqkit sample to perform subsampling + // MODULE: Run Seqtk sample to perform subsampling // if (params.sample_size > 0 ) { ch_sample_sized = SEQTK_SAMPLE( @@ -44,9 +44,7 @@ workflow SEQINSPECTOR { ch_versions = ch_versions.mix(SEQTK_SAMPLE.out.versions.first()) } else { // No do subsample - ch_sample_sized = ch_samplesheet.map { - meta, reads -> [meta, reads] - } + ch_sample_sized = ch_samplesheet } //