Sample	command
Dombi-23_ATAC_1	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/Dombi-23_ATAC_1_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/Dombi-23_ATAC_1_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/Dombi-23_ATAC_1_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/Dombi-23_ATAC_1_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/Dombi-23_ATAC_1.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/Dombi-23_ATAC_1.fastp.json 
Dombi-23_ATAC_2	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/Dombi-23_ATAC_2_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/Dombi-23_ATAC_2_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/Dombi-23_ATAC_2_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/Dombi-23_ATAC_2_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/Dombi-23_ATAC_2.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/Dombi-23_ATAC_2.fastp.json 
GSM2400260	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/GSM2400260_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/GSM2400260_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/GSM2400260_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/GSM2400260_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM2400260.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM2400260.fastp.json 
GSM2400261	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/GSM2400261_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/GSM2400261_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/GSM2400261_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/GSM2400261_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM2400261.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM2400261.fastp.json 
GSM4728093	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/GSM4728093_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/GSM4728093_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/GSM4728093_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/GSM4728093_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM4728093.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM4728093.fastp.json 
GSM4728094	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/GSM4728094_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/GSM4728094_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/GSM4728094_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/GSM4728094_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM4728094.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM4728094.fastp.json 
GSM736582	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/GSM736582.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/GSM736582_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM736582.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/GSM736582.fastp.json 
PKC19_ATAC_1	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PKC19_ATAC_1_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PKC19_ATAC_1_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PKC19_ATAC_1_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PKC19_ATAC_1_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PKC19_ATAC_1.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PKC19_ATAC_1.fastp.json 
PKC19_ATAC_2	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PKC19_ATAC_2_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PKC19_ATAC_2_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PKC19_ATAC_2_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PKC19_ATAC_2_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PKC19_ATAC_2.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PKC19_ATAC_2.fastp.json 
PKC19_ATAC_3	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PKC19_ATAC_3_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PKC19_ATAC_3_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PKC19_ATAC_3_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PKC19_ATAC_3_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PKC19_ATAC_3.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PKC19_ATAC_3.fastp.json 
PRIM_LSC_ATAC_1	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PRIM_LSC_ATAC_1_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PRIM_LSC_ATAC_1_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PRIM_LSC_ATAC_1_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PRIM_LSC_ATAC_1_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PRIM_LSC_ATAC_1.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PRIM_LSC_ATAC_1.fastp.json 
PRIM_LSC_ATAC_2	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PRIM_LSC_ATAC_2_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PRIM_LSC_ATAC_2_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PRIM_LSC_ATAC_2_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PRIM_LSC_ATAC_2_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PRIM_LSC_ATAC_2.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PRIM_LSC_ATAC_2.fastp.json 
PRIM_LSC_ATAC_3	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PRIM_LSC_ATAC_3_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PRIM_LSC_ATAC_3_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PRIM_LSC_ATAC_3_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PRIM_LSC_ATAC_3_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PRIM_LSC_ATAC_3.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PRIM_LSC_ATAC_3.fastp.json 
PRIM_LSC_ATAC_4	fastp -w 2 --in1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PRIM_LSC_ATAC_4_R1.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/fastq_dir/PRIM_LSC_ATAC_4_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PRIM_LSC_ATAC_4_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/fastq_trimmed/PRIM_LSC_ATAC_4_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PRIM_LSC_ATAC_4.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/ATAC/results/qc/trimming/PRIM_LSC_ATAC_4.fastp.json