diff --git a/README.md b/README.md
index 46e8a216..566f8ca6 100644
--- a/README.md
+++ b/README.md
@@ -83,9 +83,9 @@ To run on your data, prepare a tab-separated samplesheet with your input data. P
 
 ```csv
 sample,fastq_1,fastq_2,replicate
-CONTROL,AEG588A1_S1_L002_R1_001.fastq.gz,AEG588A1_S1_L002_R2_001.fastq.gz,1
-CONTROL,AEG588A1_S1_L003_R1_001.fastq.gz,AEG588A1_S1_L003_R2_001.fastq.gz,2
-CONTROL,AEG588A1_S1_L004_R1_001.fastq.gz,AEG588A1_S1_L004_R2_001.fastq.gz,3
+SAMPLE_A,AEG588A1_S1_L002_R1_001.fastq.gz,AEG588A1_S1_L002_R2_001.fastq.gz,1
+SAMPLE_A,AEG588A1_S1_L003_R1_001.fastq.gz,AEG588A1_S1_L003_R2_001.fastq.gz,2
+SAMPLE_A,AEG588A1_S1_L004_R1_001.fastq.gz,AEG588A1_S1_L004_R2_001.fastq.gz,3
 ```
 
 Now, you can run the pipeline using:
diff --git a/assets/samplesheet.csv b/assets/samplesheet.csv
index 3f30073d..cb938f19 100644
--- a/assets/samplesheet.csv
+++ b/assets/samplesheet.csv
@@ -1,8 +1,8 @@
 sample,fastq_1,fastq_2,replicate
-CONTROL,AEG588A1_S1_L002_R1_001.fastq.gz,AEG588A1_S1_L002_R2_001.fastq.gz,1
-CONTROL,AEG588A2_S2_L002_R1_001.fastq.gz,AEG588A2_S2_L002_R2_001.fastq.gz,2
-CONTROL,AEG588A3_S3_L002_R1_001.fastq.gz,AEG588A3_S3_L002_R2_001.fastq.gz,3
-TREATMENT,AEG588A4_S4_L003_R1_001.fastq.gz,,1
-TREATMENT,AEG588A5_S5_L003_R1_001.fastq.gz,,2
-TREATMENT,AEG588A6_S6_L003_R1_001.fastq.gz,,3
-TREATMENT,AEG588A6_S6_L004_R1_001.fastq.gz,,3
+UNTREATED_A,AEG588A1_S1_L002_R1_001.fastq.gz,AEG588A1_S1_L002_R2_001.fastq.gz,1
+UNTREATED_A,AEG588A2_S2_L002_R1_001.fastq.gz,AEG588A2_S2_L002_R2_001.fastq.gz,2
+UNTREATED_A,AEG588A3_S3_L002_R1_001.fastq.gz,AEG588A3_S3_L002_R2_001.fastq.gz,3
+TREATED_A,AEG588A4_S4_L003_R1_001.fastq.gz,,1
+TREATED_A,AEG588A5_S5_L003_R1_001.fastq.gz,,2
+TREATED_A,AEG588A6_S6_L003_R1_001.fastq.gz,,3
+TREATED_A,AEG588A6_S6_L004_R1_001.fastq.gz,,3