From 0936d82d17b4765b78d899589dbfca8cd90ef8cc Mon Sep 17 00:00:00 2001
From: Venkat Malladi <venkat.malladi@utsouthwestern.edu>
Date: Mon, 11 Mar 2019 09:01:43 -0500
Subject: [PATCH] First Multiqc config.

---
 workflow/conf/multiqc_config.yaml | 32 +++++++++++++++++++++++++++++++
 1 file changed, 32 insertions(+)
 create mode 100644 workflow/conf/multiqc_config.yaml

diff --git a/workflow/conf/multiqc_config.yaml b/workflow/conf/multiqc_config.yaml
new file mode 100644
index 0000000..d0cacf3
--- /dev/null
+++ b/workflow/conf/multiqc_config.yaml
@@ -0,0 +1,32 @@
+# Title to use for the report.
+title: BICF ChIP-seq Analysis Report
+
+report_comment: >
+    This report has been generated by the <a href="https://git.biohpc.swmed.edu/BICF/Astrocyte/chipseq_analysis/" target="_blank">BICF/chipseq_analysis</a>
+    pipeline.
+
+report_section_order:
+    software_versions:
+        order: -1000
+
+extra_fn_clean_exts:
+    - '_R1'
+    - '_R2'
+    - 'pbc.qc'
+
+fn_ignore_files:
+    - '*dedup.flagstat.qc'
+
+custom_data:
+    library_complexity:
+      file_format: 'tsv'
+      id: 'library_complexity'
+      contents: 'TotalReadPairs  DistinctReadPairs       OneReadPair     TwoReadPairs    NRF     PBC1    PBC2'
+      section_name: 'Library complexity'
+      plot_type: 'generalstats'
+
+sp:
+    phantompeakqualtools/out:
+        fn: '*cc.qc'
+    library_complexity:
+        fn: '*pbc.qc'
-- 
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