Module	Section	Sample Name	Source
fastp	all_sections	NP_Day10_supernatant_DMSO_A72_S3	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day10_supernatant_DMSO_A72_S3.fastp.json
fastp	all_sections	NP_Day12_adherent_DMSO_A61_S9	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day12_adherent_DMSO_A61_S9.fastp.json
fastp	all_sections	NP_Day10_supernatant_TA_A71_S7	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day10_supernatant_TA_A71_S7.fastp.json
fastp	all_sections	NP_Day19_supernatant_DMSO_A63_S6	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day19_supernatant_DMSO_A63_S6.fastp.json
fastp	all_sections	NP_Day12_adherent_TA_A60_S4	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day12_adherent_TA_A60_S4.fastp.json
fastp	all_sections	NP_Day19_adherent_DMSO_A65_S2	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day19_adherent_DMSO_A65_S2.fastp.json
fastp	all_sections	NP_Day1_adherentcells_TA_A66_S11	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day1_adherentcells_TA_A66_S11.fastp.json
fastp	all_sections	NP_Day12_supernatant_TA_A73_S10	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day12_supernatant_TA_A73_S10.fastp.json
fastp	all_sections	NP_Day12_supernatant_DMSO_A74_S8	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day12_supernatant_DMSO_A74_S8.fastp.json
fastp	all_sections	NP_Day1_adherentcells_DMSO_A70_S14	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day1_adherentcells_DMSO_A70_S14.fastp.json
fastp	all_sections	NP_Day19_supernatant_TA_A62_S5	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day19_supernatant_TA_A62_S5.fastp.json
fastp	all_sections	NP_Day19_adherent_TA_A64_S1	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/trimming/NP_Day19_adherent_TA_A64_S1.fastp.json
Picard	InsertSizeMetrics	NP_Day10_supernatant_TA_A71_S7	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day10_supernatant_TA_A71_S7.tsv
Picard	InsertSizeMetrics	NP_Day12_adherent_TA_A60_S4	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day12_adherent_TA_A60_S4.tsv
Picard	InsertSizeMetrics	NP_Day1_adherentcells_DMSO_A70_S14	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day1_adherentcells_DMSO_A70_S14.tsv
Picard	InsertSizeMetrics	NP_Day12_supernatant_TA_A73_S10	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day12_supernatant_TA_A73_S10.tsv
Picard	InsertSizeMetrics	NP_Day12_supernatant_DMSO_A74_S8	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day12_supernatant_DMSO_A74_S8.tsv
Picard	InsertSizeMetrics	NP_Day19_supernatant_TA_A62_S5	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day19_supernatant_TA_A62_S5.tsv
Picard	InsertSizeMetrics	NP_Day12_adherent_DMSO_A61_S9	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day12_adherent_DMSO_A61_S9.tsv
Picard	InsertSizeMetrics	NP_Day10_supernatant_DMSO_A72_S3	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day10_supernatant_DMSO_A72_S3.tsv
Picard	InsertSizeMetrics	NP_Day1_adherentcells_TA_A66_S11	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day1_adherentcells_TA_A66_S11.tsv
Picard	InsertSizeMetrics	NP_Day19_supernatant_DMSO_A63_S6	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day19_supernatant_DMSO_A63_S6.tsv
Picard	InsertSizeMetrics	NP_Day19_adherent_TA_A64_S1	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day19_adherent_TA_A64_S1.tsv
Picard	InsertSizeMetrics	NP_Day19_adherent_DMSO_A65_S2	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/InsertSizeMetrics/GRCh37-NP_Day19_adherent_DMSO_A65_S2.tsv
Picard	DuplicationMetrics	NP_Day12_supernatant_DMSO_A74_S8	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day12_supernatant_DMSO_A74_S8.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day1_adherentcells_DMSO_A70_S14	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day1_adherentcells_DMSO_A70_S14.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day12_supernatant_TA_A73_S10	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day12_supernatant_TA_A73_S10.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day19_adherent_TA_A64_S1	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day19_adherent_TA_A64_S1.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day12_adherent_TA_A60_S4	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day12_adherent_TA_A60_S4.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day10_supernatant_DMSO_A72_S3	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day10_supernatant_DMSO_A72_S3.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day19_supernatant_DMSO_A63_S6	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day19_supernatant_DMSO_A63_S6.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day10_supernatant_TA_A71_S7	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day10_supernatant_TA_A71_S7.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day19_supernatant_TA_A62_S5	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day19_supernatant_TA_A62_S5.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day12_adherent_DMSO_A61_S9	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day12_adherent_DMSO_A61_S9.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day1_adherentcells_TA_A66_S11	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day1_adherentcells_TA_A66_S11.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	NP_Day19_adherent_DMSO_A65_S2	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/markdup/GRCh37-NP_Day19_adherent_DMSO_A65_S2.samtools-coordinate.metrics.txt
SamTools pre-sieve	stats	NP_Day19_supernatant_DMSO_A63_S6	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day19_supernatant_DMSO_A63_S6.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day10_supernatant_TA_A71_S7	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day10_supernatant_TA_A71_S7.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day12_supernatant_TA_A73_S10	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day12_supernatant_TA_A73_S10.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day1_adherentcells_DMSO_A70_S14	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day1_adherentcells_DMSO_A70_S14.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day10_supernatant_DMSO_A72_S3	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day10_supernatant_DMSO_A72_S3.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day19_adherent_DMSO_A65_S2	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day19_adherent_DMSO_A65_S2.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day1_adherentcells_TA_A66_S11	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day1_adherentcells_TA_A66_S11.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day12_adherent_DMSO_A61_S9	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day12_adherent_DMSO_A61_S9.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day19_supernatant_TA_A62_S5	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day19_supernatant_TA_A62_S5.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day19_adherent_TA_A64_S1	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day19_adherent_TA_A64_S1.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day12_supernatant_DMSO_A74_S8	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day12_supernatant_DMSO_A74_S8.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	NP_Day12_adherent_TA_A60_S4	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/samtools_stats/star/GRCh37-NP_Day12_adherent_TA_A60_S4.samtools-coordinate.samtools_stats.txt
deepTools	plotPCA	GRCh37	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/plotPCA/GRCh37.tsv
deepTools	plotFingerprint	GRCh37	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/qc/plotFingerprint/GRCh37.tsv
mtnucratio	all_sections	NP_Day19_adherent_DMSO_A65_S2	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day19_adherent_DMSO_A65_S2.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day19_adherent_TA_A64_S1	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day19_adherent_TA_A64_S1.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day12_adherent_TA_A60_S4	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day12_adherent_TA_A60_S4.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day12_supernatant_DMSO_A74_S8	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day12_supernatant_DMSO_A74_S8.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day10_supernatant_TA_A71_S7	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day10_supernatant_TA_A71_S7.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day19_supernatant_TA_A62_S5	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day19_supernatant_TA_A62_S5.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day1_adherentcells_TA_A66_S11	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day1_adherentcells_TA_A66_S11.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day1_adherentcells_DMSO_A70_S14	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day1_adherentcells_DMSO_A70_S14.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day19_supernatant_DMSO_A63_S6	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day19_supernatant_DMSO_A63_S6.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day12_adherent_DMSO_A61_S9	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day12_adherent_DMSO_A61_S9.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day10_supernatant_DMSO_A72_S3	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day10_supernatant_DMSO_A72_S3.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	NP_Day12_supernatant_TA_A73_S10	/ceph/rimlsfnwi/data/moldevbio/heeringen/siebrenf/ghe_2021/results/star/GRCh37-NP_Day12_supernatant_TA_A73_S10.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json