Sample command DMSO_1 fastp -w 1 --in1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/DMSO_1_R1_trimmed.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/DMSO_1_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/DMSO_1.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/DMSO_1.fastp.json DMSO_2 fastp -w 1 --in1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/DMSO_2_R1_trimmed.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/DMSO_2_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/DMSO_2.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/DMSO_2.fastp.json DMSO_3 fastp -w 1 --in1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/DMSO_3_R1_trimmed.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/DMSO_3_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/DMSO_3.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/DMSO_3.fastp.json DMSO_4 fastp -w 1 --in1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/DMSO_4_R1_trimmed.fastq.gz --in2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/DMSO_4_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/DMSO_4.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/DMSO_4.fastp.json HSCD12_DMSO_1bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_1bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_1bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_1bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_1bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_1bio.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_1bio.fastp.json HSCD12_DMSO_1tec fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_1tec_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_1tec_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_1tec_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_1tec_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_1tec.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_1tec.fastp.json HSCD12_DMSO_2bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_2bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_2bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_2bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_2bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_2bio.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_2bio.fastp.json HSCD12_DMSO_2tec fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_2tec_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_2tec_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_2tec_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_2tec_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_2tec.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_2tec.fastp.json HSCD12_DMSO_3bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_3bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_3bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_3bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_3bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_3bio.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_3bio.fastp.json HSCD12_DMSO_3tec fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_3tec_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_DMSO_3tec_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_3tec_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_DMSO_3tec_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_3tec.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_DMSO_3tec.fastp.json HSCD12_RU1uMTA100nM_1bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_1bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_1bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_1bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_1bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_1bio.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_1bio.fastp.json HSCD12_RU1uMTA100nM_1tec fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_1tec_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_1tec_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_1tec_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_1tec_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_1tec.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_1tec.fastp.json HSCD12_RU1uMTA100nM_2bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_2bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_2bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_2bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_2bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_2bio.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_2bio.fastp.json HSCD12_RU1uMTA100nM_2tec fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_2tec_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_2tec_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_2tec_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_2tec_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_2tec.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_2tec.fastp.json HSCD12_RU1uMTA100nM_3bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_3bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_3bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_3bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_3bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_3bio.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_3bio.fastp.json HSCD12_RU1uMTA100nM_3tec fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_3tec_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA100nM_3tec_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_3tec_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA100nM_3tec_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_3tec.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA100nM_3tec.fastp.json HSCD12_RU1uMTA1uM_1bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_1bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_1bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_1bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_1bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_1bio.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_1bio.fastp.json HSCD12_RU1uMTA1uM_1tec fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_1tec_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_1tec_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_1tec_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_1tec_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_1tec.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_1tec.fastp.json HSCD12_RU1uMTA1uM_2bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_2bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_2bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_2bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_2bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_2bio.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_2bio.fastp.json HSCD12_RU1uMTA1uM_2tec fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_2tec_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_2tec_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_2tec_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_2tec_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_2tec.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_2tec.fastp.json HSCD12_RU1uMTA1uM_3bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_3bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_3bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_3bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_3bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_3bio.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_3bio.fastp.json HSCD12_RU1uMTA1uM_3tec fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_3tec_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uMTA1uM_3tec_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_3tec_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uMTA1uM_3tec_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_3tec.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uMTA1uM_3tec.fastp.json HSCD12_RU1uM_1bio fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uM_1bio_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/HSCD12_RU1uM_1bio_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uM_1bio_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/HSCD12_RU1uM_1bio_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/HSCD12_RU1uM_1bio.fastp.html -j 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NP_Day12_supernatant_DMSO_2 fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/NP_Day12_supernatant_DMSO_2_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/NP_Day12_supernatant_DMSO_2_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/NP_Day12_supernatant_DMSO_2_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/NP_Day12_supernatant_DMSO_2_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/NP_Day12_supernatant_DMSO_2.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/NP_Day12_supernatant_DMSO_2.fastp.json NP_Day12_supernatant_DMSO_3 fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/NP_Day12_supernatant_DMSO_3_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/NP_Day12_supernatant_DMSO_3_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/NP_Day12_supernatant_DMSO_3_R1_trimmed.fastq.gz --out2 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/NP_Day12_supernatant_DMSO_3_R2_trimmed.fastq.gz -h /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/NP_Day12_supernatant_DMSO_3.fastp.html -j /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/qc/trimming/NP_Day12_supernatant_DMSO_3.fastp.json NP_Day12_supernatant_TA_1 fastp -w 2 --in1 /home/slrinzema/ceph/ghe/samples/NP_Day12_supernatant_TA_1_R1.fastq.gz --in2 /home/slrinzema/ceph/ghe/samples/NP_Day12_supernatant_TA_1_R2.fastq.gz --out1 /ceph/rimlsfnwi/data/moldevbio/heeringen/slrinzema/ghe/2023_s2s_run/results/fastq_trimmed/NP_Day12_supernatant_TA_1_R1_trimmed.fastq.gz --out2 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