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Synchronize example samplesheets with the usage.md #362

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Synchronize example samplesheets with the usage.md #362

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Synchronize example samplesheets with the usage.md
Apr 12, 2024
e69f5dc
Synchronize README.md with usage.md
bjlang Jun 10, 2024
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6 changes: 3 additions & 3 deletions README.md
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Original file line number Diff line number Diff line change
Expand Up @@ -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:
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14 changes: 7 additions & 7 deletions assets/samplesheet.csv
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@@ -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