add after filtering total reads to general stats table

MultiQC · Aug 21, 2022 · 3c59cd4 · 3c59cd4
1 parent 8aa4021
commit 3c59cd4
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -13,6 +13,7 @@
 - Tidied the verbose log to remove some very noisy statements and add summaries for skipped files in the search
 - Add timezone to time in reports
 - Add nix flake support
+- Add total read count (after filtering) from fastp to general stats table
 
 ### New Modules
 

diff --git a/multiqc/modules/fastp/fastp.py b/multiqc/modules/fastp/fastp.py
@@ -324,6 +324,14 @@ def fastp_general_stats_table(self):
             "shared_key": "base_count",
             "hidden": True,
         }
+        headers["after_filtering_total_reads"] = {
+            "title": "{} Reads After Filtering".format(config.read_count_prefix),
+            "description": "Total reads after filtering ({})".format(config.read_count_desc),
+            "min": 0,
+            "scale": "Blues",
+            "modify": lambda x: x * config.read_count_multiplier,
+            "shared_key": "read_count",
+        }
         headers["after_filtering_gc_content"] = {
             "title": "GC content",
             "description": "GC content after filtering",