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Co-authored-by: Lili Andersson-Li <[email protected]>
nf-core · Aug 13, 2024 · 02567b3 · 02567b3
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diff --git a/assets/multiqc_config.yml b/assets/multiqc_config.yml
@@ -62,7 +62,8 @@ custom_logo_title: "nf-core/taxprofiler"
 run_modules:
   - fastqc
   - adapterRemoval
-  - nonpareil
+    - fastp
+    - nonpareil
   - bbduk
   - prinseqplusplus
   - porechop

diff --git a/docs/output.md b/docs/output.md
@@ -150,7 +150,7 @@ The resulting `.fastq` files may _not_ always be the 'final' reads that go into
   - `<sample_id>.npa` - raw version of npo but with all replicates not just a summary (average) at each point. These three columns are: seq. effort (_n_ reads), replicate ID, redundancy value.
   - `<sample_id>.npc` - raw list with the number of reads in the dataset matching a query read.
   - `<sample_id>.png` - rendered version of a Nonpareil curve, with extrapolation and sequencing effort information.
-  - `nonpareil_all_samples_mqc.{png,pdf}` summary of plot of curves of all samples with sequencing effort information.
+  - `nonpareil_all_samples_mqc.{png,pdf}` summary of the plot of curves for all samples with sequencing effort information.
   - `nonpareil_all_samples_mqc.{json,tsv,csv}` basic summary statistics of model, with additional curve and plotting information in the JSON.
 
   </details>