docs: new picard/samtofastq module

CCBR · Oct 23, 2023 · d8d5c6f · d8d5c6f
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -7,5 +7,6 @@
 - custom/bam_to_fastq (#14)
 - cutadapt (#11)
 - khmer/uniquekmers (#7)
+- picard/samtofastq (#21)
 - samtools/filteraligned (#13,#20)
   - also runs samtools sort & outputs index in bai format. (#12)
diff --git a/README.md b/README.md
@@ -38,5 +38,6 @@ Many of the modules and subworkflows in this project reuse and adapt code from [
 In those cases, credit is noted in the `meta.yml` file of the module/subworkflow and also listed here:
 
 - [bwa](modules/CCBR/bwa) adapts the [nf-core bwa module](https://github.com/nf-core/chipseq/tree/51eba00b32885c4d0bec60db3cb0a45eb61e34c5/modules/nf-core/modules/bwa)
-- [cutadapt](modules/CCBR/cutadapt) adapts the [nf-core cutadapt module](https://github.com/nf-core/modules/tree/master/modules/nf-core/cutadapt)
+- [cutadapt](modules/CCBR/cutadapt) adapts the [nf-core cutadapt module](https://github.com/nf-core/modules/tree/ef007b1ce5316506b8c27c3e7a62482409c6153c/modules/nf-core/cutadapt)
 - [khmer](modules/CCBR/khmer) adapts the [nf-core khmer module](https://github.com/nf-core/modules/tree/b48a1efc8e067502e1a9bafbac788c1e0abdfc6a/modules/nf-core/khmer)
+- [picard/samtofastq] adapts the [nf-core gatk4 samtofastq module](https://github.com/nf-core/modules/tree/ef007b1ce5316506b8c27c3e7a62482409c6153c/modules/nf-core/gatk4/samtofastq)
diff --git a/modules/CCBR/picard/samtofastq/meta.yml b/modules/CCBR/picard/samtofastq/meta.yml
@@ -1,5 +1,5 @@
 name: "picard_samtofastq"
-description: Converts a BAM or SAM file to fastq.
+description: Converts a BAM or SAM file to fastq. Adapted from the nf-core gatk4 samtofastq module.
 keywords:
   - fastq
   - bam