Add fastp files

Clinical-Genomics · Feb 16, 2024 · a40d1ec · a40d1ec
1 parent 7700b6b
commit a40d1ec
Show file tree

Hide file tree

Showing 2 changed files with 7 additions and 0 deletions.
diff --git a/cg_hermes/config/balsamic.py b/cg_hermes/config/balsamic.py
@@ -16,6 +16,7 @@
     "multiqc_picard_HsMetrics.json": ["multiqc", "picard", "hsmetrics"],
     "multiqc_picard_insertSize.json": ["multiqc", "picard", "insertsize"],
     "multiqc_picard_wgsmetrics.json": ["multiqc", "picard", "wgsmetrics"],
+    "multiqc_fastp.json": ["multiqc", "fastp"],
     "multiqc_samtools_stats.json": ["multiqc", "samtools", "stats"],
     "multiqc_somalier.json": ["multiqc", "somalier"],
     # Custom QC
@@ -269,6 +270,11 @@
         "is_mandatory": False,
         "used_by": ["storage", "janus"],
     },
+    frozenset(RAW_TAGS["multiqc_fastp.json"]): {
+        "tags": ["qc-metrics", "multiqc", "fastp"],
+        "is_mandatory": True,
+        "used_by": ["storage", "janus"],
+    },
     frozenset(RAW_TAGS["multiqc_samtools_stats.json"]): {
         "tags": ["qc-metrics", "multiqc", "samtools-stats"],
         "is_mandatory": True,

diff --git a/cg_hermes/config/tags.py b/cg_hermes/config/tags.py
@@ -161,6 +161,7 @@
     "deseq2": {"description": "Differential expression analysis with DESeq2"},
     "dnascope": {"description": "Call snv indels"},
     "expansionhunter": {"description": "Call repeat expansions"},
+    "fastp": {"description": "Preprocessing tool for FastQ files"},
     "fusioncatcher": {"description": "Fusion caller"},
     "fusioncatcher-summary": {"description": "Fusion caller summary"},
     "fusioninspector": {"description": "Fusion inspection"},