File Info

Filename
samplesheet_input.csv
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/28/b4a0df85d5d65c70b7ade22a513b22/samplesheet_input.csv
Size
10.8 KB
Task
NFCORE_SAREK:PUBLISH_INPUT_SAMPLESHEET (input_samplesheet)
Attempt

Content

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normal_sample_id,normal_sample_bam,normal_sample_bai,tumor_sample_id,tumor_sample_bam,tumor_sample_bai,id
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_1/COLO829_c_0001_gDNA_0001_B23H2NLLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_1/COLO829_c_0001_gDNA_0001_B23H2NLLT4_1.recalibrated.bam.bai,COLO829_tumor_100pct_rep1
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_2,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_2/COLO829_c_0001_gDNA_0001_B23H2NLLT4_2.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_2/COLO829_c_0001_gDNA_0001_B23H2NLLT4_2.recalibrated.bam.bai,COLO829_tumor_75pct_rep1
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_3,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_3/COLO829_c_0001_gDNA_0001_B23H2NLLT4_3.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_3/COLO829_c_0001_gDNA_0001_B23H2NLLT4_3.recalibrated.bam.bai,COLO829_tumor_50pct_rep1
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_4,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_4/COLO829_c_0001_gDNA_0001_B23H2NLLT4_4.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_4/COLO829_c_0001_gDNA_0001_B23H2NLLT4_4.recalibrated.bam.bai,COLO829_tumor_20pct_rep1
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_5,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_5/COLO829_c_0001_gDNA_0001_B23H2NLLT4_5.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_5/COLO829_c_0001_gDNA_0001_B23H2NLLT4_5.recalibrated.bam.bai,COLO829_tumor_100pct_rep2
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_6,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_6/COLO829_c_0001_gDNA_0001_B23H2NLLT4_6.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_6/COLO829_c_0001_gDNA_0001_B23H2NLLT4_6.recalibrated.bam.bai,COLO829_tumor_75pct_rep2
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_7,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_7/COLO829_c_0001_gDNA_0001_B23H2NLLT4_7.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_7/COLO829_c_0001_gDNA_0001_B23H2NLLT4_7.recalibrated.bam.bai,COLO829_tumor_50pct_rep2
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_8,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_8/COLO829_c_0001_gDNA_0001_B23H2NLLT4_8.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_8/COLO829_c_0001_gDNA_0001_B23H2NLLT4_8.recalibrated.bam.bai,COLO829_tumor_20pct_rep2
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_9,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_9/COLO829_c_0001_gDNA_0001_B23H2NLLT4_9.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_9/COLO829_c_0001_gDNA_0001_B23H2NLLT4_9.recalibrated.bam.bai,COLO829_tumor_10pct_rep1
COLO829BL_c_01_gDNA_0001_A237FLHLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260202_LH00166_0235_A237FLHLT3__aa3fd045--20260226-233316/alignments/recalibrated/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1/COLO829BL_c_01_gDNA_0001_A237FLHLT3_1.recalibrated.bam.bai,COLO829_c_0001_gDNA_0001_B23H2NLLT4_10,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_10/COLO829_c_0001_gDNA_0001_B23H2NLLT4_10.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20251205_LH00166_0217_B23H2NLLT4__c669fb6c--20260304-055755/alignments/recalibrated/COLO829_c_0001_gDNA_0001_B23H2NLLT4_10/COLO829_c_0001_gDNA_0001_B23H2NLLT4_10.recalibrated.bam.bai,COLO829_tumor_10pct_rep2
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