diff --git a/modules.json b/modules.json
index 7716936..e45930a 100644
--- a/modules.json
+++ b/modules.json
@@ -59,6 +59,14 @@
                             "modules"
                         ]
                     },
+                    "fastx/collapser": {
+                        "branch": "master",
+                        "git_sha": "210e7c8f33f8ca0e35e027aa8889d03205a57b88",
+                        "installed_by": [
+                            "modules"
+                        ],
+                        "patch": "modules/nf-core/fastx/collapser/fastx-collapser.diff"
+                    },
                     "gunzip": {
                         "branch": "master",
                         "git_sha": "5c460c5a4736974abde2843294f35307ee2b0e5e",
diff --git a/modules/local/fastx_toolkit/collapser.nf b/modules/local/fastx_toolkit/collapser.nf
deleted file mode 100644
index a071fde..0000000
--- a/modules/local/fastx_toolkit/collapser.nf
+++ /dev/null
@@ -1,33 +0,0 @@
-process FASTX_COLLAPSER {
-    tag "$meta.id"
-    label 'process_medium'
-
-    conda "bioconda::fastx_toolkit=0.0.14"
-    container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/fastx_toolkit:0.0.14--hdbdd923_11':
-        'quay.io/biocontainers/fastx_toolkit:0.0.14--hdbdd923_11' }"
-
-    input:
-    tuple val(meta), path(fastq)
-
-    output:
-    tuple val(meta), path("*fasta"), emit: collapsed
-    path "versions.yml"            , emit: versions
-
-    when:
-    task.ext.when == null || task.ext.when
-
-    script:
-    def args = task.ext.args ?: ''
-    def prefix = task.ext.prefix ?: "${meta.id}"
-    """
-    fastx_collapser \\
-        -i $fastq \\
-        -o ${prefix}.fasta
-
-    cat <<-END_VERSIONS > versions.yml
-    "${task.process}":
-        : \$(echo \$(fastx_collapser -h) | sed -nE 's/.*([0-9]+\\.[0-9]+\\.[0-9]+).*/\\1/p' ))
-    END_VERSIONS
-    """
-}
diff --git a/modules/nf-core/fastx/collapser/environment.yml b/modules/nf-core/fastx/collapser/environment.yml
new file mode 100644
index 0000000..b685bd7
--- /dev/null
+++ b/modules/nf-core/fastx/collapser/environment.yml
@@ -0,0 +1,9 @@
+---
+# yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/modules/environment-schema.json
+name: "fastx_collapser"
+channels:
+  - conda-forge
+  - bioconda
+  - defaults
+dependencies:
+  - "bioconda::fastx_toolkit=0.0.14"
diff --git a/modules/nf-core/fastx/collapser/fastx-collapser.diff b/modules/nf-core/fastx/collapser/fastx-collapser.diff
new file mode 100644
index 0000000..266e2d5
--- /dev/null
+++ b/modules/nf-core/fastx/collapser/fastx-collapser.diff
@@ -0,0 +1,14 @@
+Changes in module 'nf-core/fastx/collapser'
+--- modules/nf-core/fastx/collapser/main.nf
++++ modules/nf-core/fastx/collapser/main.nf
+@@ -5,7 +5,7 @@
+     conda "${moduleDir}/environment.yml"
+     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
+         'https://depot.galaxyproject.org/singularity/fastx_toolkit:0.0.14--hdbdd923_11':
+-        'biocontainers/fastx_toolkit:0.0.14--hdbdd923_11' }"
++        'quay.io/biocontainers/fastx_toolkit:0.0.14--hdbdd923_11' }"
+ 
+     input:
+     tuple val(meta), path(fastx)
+
+************************************************************
diff --git a/modules/nf-core/fastx/collapser/main.nf b/modules/nf-core/fastx/collapser/main.nf
new file mode 100644
index 0000000..5447391
--- /dev/null
+++ b/modules/nf-core/fastx/collapser/main.nf
@@ -0,0 +1,46 @@
+process FASTX_COLLAPSER {
+    tag "$meta.id"
+    label 'process_medium'
+
+    conda "${moduleDir}/environment.yml"
+    container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
+        'https://depot.galaxyproject.org/singularity/fastx_toolkit:0.0.14--hdbdd923_11':
+        'quay.io/biocontainers/fastx_toolkit:0.0.14--hdbdd923_11' }"
+
+    input:
+    tuple val(meta), path(fastx)
+
+    output:
+    tuple val(meta), path("${prefix}.fasta"), emit: fasta
+    path "versions.yml"                     , emit: versions
+
+    when:
+    task.ext.when == null || task.ext.when
+
+    script:
+    def args = task.ext.args ?: ''
+    prefix = task.ext.prefix ?: "${meta.id}"
+    """
+    fastx_collapser \\
+        $args \\
+        -i $fastx \\
+        -o ${prefix}.fasta
+
+    cat <<-END_VERSIONS > versions.yml
+    "${task.process}":
+        fastx:  \$(echo \$(fastx_collapser -h) | sed -nE 's/.*([0-9]+\\.[0-9]+\\.[0-9]+).*/\\1/p' ))
+    END_VERSIONS
+    """
+
+    stub:
+    def args = task.ext.args ?: ''
+    prefix = task.ext.prefix ?: "${meta.id}"
+    """
+    touch ${prefix}.fasta
+
+    cat <<-END_VERSIONS > versions.yml
+    "${task.process}":
+        fastx:  \$(echo \$(fastx_collapser -h) | sed -nE 's/.*([0-9]+\\.[0-9]+\\.[0-9]+).*/\\1/p' ))
+    END_VERSIONS
+    """
+}
diff --git a/modules/nf-core/fastx/collapser/meta.yml b/modules/nf-core/fastx/collapser/meta.yml
new file mode 100644
index 0000000..ad36701
--- /dev/null
+++ b/modules/nf-core/fastx/collapser/meta.yml
@@ -0,0 +1,51 @@
+---
+# yaml-language-server: $schema=https://raw.githubusercontent.com/nf-core/modules/master/modules/meta-schema.json
+name: "fastx_collapser"
+description: Collapses identical sequences in a FASTQ/A file into a single sequence (while maintaining reads counts)
+keywords:
+  - collapse
+  - genomics
+  - fasta
+  - fastq
+tools:
+  - "fastx":
+      description: "A collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing"
+      homepage: "http://hannonlab.cshl.edu/fastx_toolkit/"
+      documentation: "http://hannonlab.cshl.edu/fastx_toolkit/commandline.html"
+      tool_dev_url: "https://github.com/agordon/fastx_toolkit"
+      licence: ["AGPL"]
+
+input:
+  # Only when we have meta
+  - meta:
+      type: map
+      description: |
+        Groovy Map containing sample information
+        e.g. `[ id:'sample1', single_end:false ]`
+
+  - fastx:
+      type: file
+      description: Decompressed FASTA/FASTQ input file
+      pattern: "*.{fastq,fasta}"
+
+output:
+  - meta:
+      type: map
+      description: |
+        Groovy Map containing sample information
+        e.g. `[ id:'sample1', single_end:false ]`
+
+  - versions:
+      type: file
+      description: File containing software versions
+      pattern: "versions.yml"
+
+  - fasta:
+      type: file
+      description: Collapsed FASTA file
+      pattern: "*.fasta"
+
+authors:
+  - "@jvfe"
+maintainers:
+  - "@jvfe"
diff --git a/modules/nf-core/fastx/collapser/tests/main.nf.test b/modules/nf-core/fastx/collapser/tests/main.nf.test
new file mode 100644
index 0000000..c3a4f09
--- /dev/null
+++ b/modules/nf-core/fastx/collapser/tests/main.nf.test
@@ -0,0 +1,61 @@
+// nf-core modules test fastx/collapser
+nextflow_process {
+
+    name "Test Process FASTX_COLLAPSER"
+    script "../main.nf"
+    process "FASTX_COLLAPSER"
+
+    tag "modules"
+    tag "modules_nfcore"
+    tag "fastx"
+    tag "fastx/collapser"
+
+    test("homo_sapiens - fasta") {
+
+        when {
+            process {
+                """
+                input[0] = [
+                    [ id:'test' ], // meta map
+                    file(params.test_data['homo_sapiens']['pacbio']['ccs_fa'], checkIfExists: true)
+                    ]
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert path(process.out.fasta[0][1]).text.contains(">1-1") },
+                { assert process.out.fasta[0][1] ==~ ".*/test.fasta" },
+                { assert snapshot(process.out).match() }
+            )
+        }
+
+    }
+
+    test("homo_sapiens - fasta - stub") {
+
+        options "-stub"
+
+        when {
+            process {
+                """
+                input[0] = [
+                    [ id:'test'], // meta map
+                    file(params.test_data['homo_sapiens']['pacbio']['ccs_fa'], checkIfExists: true)
+                    ]
+                """
+            }
+        }
+
+        then {
+            assertAll(
+                { assert process.success },
+                { assert snapshot(process.out).match() }
+            )
+        }
+
+    }
+
+}
\ No newline at end of file
diff --git a/modules/nf-core/fastx/collapser/tests/main.nf.test.snap b/modules/nf-core/fastx/collapser/tests/main.nf.test.snap
new file mode 100644
index 0000000..3765b47
--- /dev/null
+++ b/modules/nf-core/fastx/collapser/tests/main.nf.test.snap
@@ -0,0 +1,68 @@
+{
+    "homo_sapiens - fasta - stub": {
+        "content": [
+            {
+                "0": [
+                    [
+                        {
+                            "id": "test"
+                        },
+                        "test.fasta:md5,d41d8cd98f00b204e9800998ecf8427e"
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,398e38403d1f6ea2dc8f7595aa41254f"
+                ],
+                "fasta": [
+                    [
+                        {
+                            "id": "test"
+                        },
+                        "test.fasta:md5,d41d8cd98f00b204e9800998ecf8427e"
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,398e38403d1f6ea2dc8f7595aa41254f"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "23.10.1"
+        },
+        "timestamp": "2024-03-19T10:14:28.765300067"
+    },
+    "homo_sapiens - fasta": {
+        "content": [
+            {
+                "0": [
+                    [
+                        {
+                            "id": "test"
+                        },
+                        "test.fasta:md5,b6b46831557eab6fe7a51419823fb079"
+                    ]
+                ],
+                "1": [
+                    "versions.yml:md5,398e38403d1f6ea2dc8f7595aa41254f"
+                ],
+                "fasta": [
+                    [
+                        {
+                            "id": "test"
+                        },
+                        "test.fasta:md5,b6b46831557eab6fe7a51419823fb079"
+                    ]
+                ],
+                "versions": [
+                    "versions.yml:md5,398e38403d1f6ea2dc8f7595aa41254f"
+                ]
+            }
+        ],
+        "meta": {
+            "nf-test": "0.8.4",
+            "nextflow": "23.10.1"
+        },
+        "timestamp": "2024-03-19T10:17:46.177654196"
+    }
+}
\ No newline at end of file
diff --git a/modules/nf-core/fastx/collapser/tests/tags.yml b/modules/nf-core/fastx/collapser/tests/tags.yml
new file mode 100644
index 0000000..75f33bf
--- /dev/null
+++ b/modules/nf-core/fastx/collapser/tests/tags.yml
@@ -0,0 +1,2 @@
+fastx/collapser:
+  - "modules/nf-core/fastx/collapser/**"
diff --git a/workflows/euryale.nf b/workflows/euryale.nf
index 2df1a88..7f899ab 100644
--- a/workflows/euryale.nf
+++ b/workflows/euryale.nf
@@ -36,7 +36,6 @@ ch_multiqc_custom_methods_description = params.multiqc_methods_description ? fil
 //
 // MODULES
 //
-include { FASTX_COLLAPSER } from '../modules/local/fastx_toolkit/collapser'
 
 //
 // SUBWORKFLOW: Consisting of a mix of local and nf-core/modules
@@ -59,6 +58,7 @@ include { FUNCTIONAL } from '../subworkflows/local/functional'
 // MODULE: Installed directly from nf-core/modules
 //
 include { GUNZIP } from '../modules/nf-core/gunzip/main'
+include { FASTX_COLLAPSER } from '../modules/nf-core/fastx/collapser'
 include { MULTIQC                     } from '../modules/nf-core/multiqc/main'
 include { CUSTOM_DUMPSOFTWAREVERSIONS } from '../modules/nf-core/custom/dumpsoftwareversions/main'
 
@@ -143,7 +143,7 @@ workflow EURYALE {
             decompressed_reads
         )
 
-        FASTX_COLLAPSER.out.collapsed.set { clean_reads }
+        FASTX_COLLAPSER.out.fasta.set { clean_reads }
     }
 
      if (!params.skip_alignment) {