Module	Section	Sample Name	Source
fastp	all_sections	GSM4728060	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/GSM4728060.fastp.json
fastp	all_sections	SRR5499067	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/SRR5499067.fastp.json
fastp	all_sections	PKC19_RNA_3JQ	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/PKC19_RNA_3JQ.fastp.json
fastp	all_sections	PKC19_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/PKC19_RNA_2.fastp.json
fastp	all_sections	GSM958733	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/GSM958733.fastp.json
fastp	all_sections	PKC19_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/PKC19_RNA_1.fastp.json
fastp	all_sections	SRR5499071	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/SRR5499071.fastp.json
fastp	all_sections	PRIM_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/PRIM_RNA_2.fastp.json
fastp	all_sections	GSM915329	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/GSM915329.fastp.json
fastp	all_sections	PRIM_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/PRIM_RNA_1.fastp.json
fastp	all_sections	GSM4728059	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/trimming/GSM4728059.fastp.json
Picard	InsertSizeMetrics	GSM958733	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-GSM958733.tsv
Picard	InsertSizeMetrics	PKC19_RNA_3JQ	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-PKC19_RNA_3JQ.tsv
Picard	InsertSizeMetrics	PKC19_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-PKC19_RNA_2.tsv
Picard	InsertSizeMetrics	GSM4728059	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-GSM4728059.tsv
Picard	InsertSizeMetrics	PKC19_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-PKC19_RNA_1.tsv
Picard	InsertSizeMetrics	SRR5499067	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-SRR5499067.tsv
Picard	InsertSizeMetrics	GSM4728060	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-GSM4728060.tsv
Picard	InsertSizeMetrics	SRR5499071	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-SRR5499071.tsv
Picard	InsertSizeMetrics	GSM915329	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-GSM915329.tsv
Picard	InsertSizeMetrics	PRIM_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-PRIM_RNA_2.tsv
Picard	InsertSizeMetrics	PRIM_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/InsertSizeMetrics/hg38-PRIM_RNA_1.tsv
Picard	DuplicationMetrics	PRIM_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-PRIM_RNA_2.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	PKC19_RNA_3JQ	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-PKC19_RNA_3JQ.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	PKC19_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-PKC19_RNA_1.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	PRIM_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-PRIM_RNA_1.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	GSM4728060	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-GSM4728060.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	GSM958733	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-GSM958733.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	SRR5499071	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-SRR5499071.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	GSM915329	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-GSM915329.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	GSM4728059	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-GSM4728059.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	SRR5499067	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-SRR5499067.samtools-coordinate.metrics.txt
Picard	DuplicationMetrics	PKC19_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/markdup/hg38-PKC19_RNA_2.samtools-coordinate.metrics.txt
SamTools pre-sieve	stats	GSM4728059	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-GSM4728059.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	GSM915329	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-GSM915329.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	PKC19_RNA_3JQ	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-PKC19_RNA_3JQ.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	PKC19_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-PKC19_RNA_1.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	GSM958733	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-GSM958733.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	PRIM_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-PRIM_RNA_2.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	PRIM_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-PRIM_RNA_1.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	GSM4728060	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-GSM4728060.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	SRR5499067	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-SRR5499067.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	SRR5499071	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-SRR5499071.samtools-coordinate.samtools_stats.txt
SamTools pre-sieve	stats	PKC19_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/star/hg38-PKC19_RNA_2.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	GSM4728060	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-GSM4728060.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	SRR5499071	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-SRR5499071.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	PKC19_RNA_3JQ	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-PKC19_RNA_3JQ.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	PKC19_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-PKC19_RNA_1.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	GSM4728059	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-GSM4728059.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	PRIM_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-PRIM_RNA_1.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	PRIM_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-PRIM_RNA_2.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	GSM958733	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-GSM958733.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	SRR5499067	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-SRR5499067.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	GSM915329	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-GSM915329.samtools-coordinate.samtools_stats.txt
SamTools post-sieve	stats	PKC19_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/samtools_stats/final_bam/hg38-PKC19_RNA_2.samtools-coordinate.samtools_stats.txt
deepTools	plotPCA	hg38	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/plotPCA/hg38.tsv
deepTools	plotFingerprint	hg38	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/plotFingerprint/hg38.tsv
Strandedness	infer_experiment	PKC19_RNA_3JQ.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-PKC19_RNA_3JQ.strandedness.txt
Strandedness	infer_experiment	PKC19_RNA_2.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-PKC19_RNA_2.strandedness.txt
Strandedness	infer_experiment	GSM915329.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-GSM915329.strandedness.txt
Strandedness	infer_experiment	PRIM_RNA_2.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-PRIM_RNA_2.strandedness.txt
Strandedness	infer_experiment	SRR5499071.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-SRR5499071.strandedness.txt
Strandedness	infer_experiment	GSM958733.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-GSM958733.strandedness.txt
Strandedness	infer_experiment	GSM4728059.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-GSM4728059.strandedness.txt
Strandedness	infer_experiment	GSM4728060.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-GSM4728060.strandedness.txt
Strandedness	infer_experiment	PRIM_RNA_1.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-PRIM_RNA_1.strandedness.txt
Strandedness	infer_experiment	SRR5499067.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-SRR5499067.strandedness.txt
Strandedness	infer_experiment	PKC19_RNA_1.strandedness	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/qc/strandedness/hg38-PKC19_RNA_1.strandedness.txt
mtnucratio	all_sections	GSM4728060	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-GSM4728060.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	SRR5499067	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-SRR5499067.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	PRIM_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-PRIM_RNA_2.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	SRR5499071	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-SRR5499071.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	PKC19_RNA_3JQ	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-PKC19_RNA_3JQ.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	GSM915329	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-GSM915329.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	PKC19_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-PKC19_RNA_1.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	GSM4728059	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-GSM4728059.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	PKC19_RNA_2	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-PKC19_RNA_2.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	PRIM_RNA_1	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-PRIM_RNA_1.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json
mtnucratio	all_sections	GSM958733	/ceph/rimlsfnwi/data/moldevbio/zhou/jsmits/Ananse_test_data/RNAseq/results/star/hg38-GSM958733.samtools-coordinate-unsieved.bam.mtnucratiomtnuc.json