Differences

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--- scripts:qc [2025/03/21 12:36] – 37.26.174.181
+++ scripts:qc [2025/03/21 12:43] (current) – 37.26.174.181
@@ Line 133: / Line 133: @@
 </code>
-You can also use the same scripts on trimmed files. Just add "_trimmed" to the inputs and outputs like this. Remember to save them in separate folders (fastqc_post, multiqc_trimmed)
+You can also use the same scripts on trimmed files. Just add "_trimmed" to the inputs and outputs like this. Remember to save them in separate folders (fastqc_trimmed, multiqc_trimmed)
 fastqc_post_00.sh
@@ Line 140: / Line 140: @@
 #SBATCH --mem=10gb
 #SBATCH --cpus-per-task=10
-#SBATCH --job-name=fastqc_00
+#SBATCH --job-name=fastqc_post_00
-#SBATCH --output=log/fastqc_00%j.log  # %j will be replaced with the job ID
+#SBATCH --output=log/fastqc_post_00%j.log  # %j will be replaced with the job ID
 #parameters
@@ Line 156: / Line 156: @@
 #SBATCH --mem=10gb
 #SBATCH --cpus-per-task=10
-#SBATCH --job-name=multiqc_00
+#SBATCH --job-name=multiqc_post_00
-#SBATCH --output=log/multiqc_00%j.log  # %j will be replaced with the job ID
+#SBATCH --output=log/multiqc_post_00%j.log  # %j will be replaced with the job ID
 #parameters
@@ Line 167: / Line 167: @@
 </code>
-== Fastp ==
+=== Fastp ===
 If you want to add Fastp reports to MultiQC, you can add "fq_trimmed" directory as input to MultiQC (multiqc_fastp.sh).
@@ Line 205: / Line 205: @@
 </code>
-In parent script:
+== Parent ==
+multiqc_fastp_00.sh
 <code>
 #!/bin/bash
 #SBATCH --mem=10gb
 #SBATCH --cpus-per-task=10
-#SBATCH --job-name=multiqc_00
+#SBATCH --job-name=multiqc_fastp_00
-#SBATCH --output=log/multiqc_00%j.log  # %j will be replaced with the job ID
+#SBATCH --output=log/multiqc_fastp_00%j.log  # %j will be replaced with the job ID
 #parameters