File Info

Filename
samplesheet_input.csv
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/16/4d11958f0753f526e4ee248d736e80/samplesheet_input.csv
Size
48.0 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
869_HUS-N1-BDNA-1_A23FG3YLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_HUS-N1-BDNA-1_A23FG3YLT4_1/869_HUS-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_HUS-N1-BDNA-1_A23FG3YLT4_1/869_HUS-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam.bai,869_HUS-T1-TDNA-1_A23WGJTLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_HUS-T1-TDNA-1_A23WGJTLT4_1/869_HUS-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_HUS-T1-TDNA-1_A23WGJTLT4_1/869_HUS-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam.bai,
869_VZQ-N1-BDNA-1_A23FG3YLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_VZQ-N1-BDNA-1_A23FG3YLT4_1/869_VZQ-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_VZQ-N1-BDNA-1_A23FG3YLT4_1/869_VZQ-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam.bai,869_VZQ-T1-TDNA-1_A23WGJTLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_VZQ-T1-TDNA-1_A23WGJTLT4_1/869_VZQ-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_VZQ-T1-TDNA-1_A23WGJTLT4_1/869_VZQ-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam.bai,
869_XA6-N1-BDNA-1_A23FG3YLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_XA6-N1-BDNA-1_A23FG3YLT4_1/869_XA6-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_XA6-N1-BDNA-1_A23FG3YLT4_1/869_XA6-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam.bai,869_XA6-T1-TDNA-1_A23WGJTLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_XA6-T1-TDNA-1_A23WGJTLT4_1/869_XA6-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_XA6-T1-TDNA-1_A23WGJTLT4_1/869_XA6-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam.bai,
869_XTN-N1-BDNA-1_A23FG3YLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_XTN-N1-BDNA-1_A23FG3YLT4_1/869_XTN-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_XTN-N1-BDNA-1_A23FG3YLT4_1/869_XTN-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam.bai,869_XTN-T1-TDNA-1_A23WGJTLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_XTN-T1-TDNA-1_A23WGJTLT4_1/869_XTN-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_XTN-T1-TDNA-1_A23WGJTLT4_1/869_XTN-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam.bai,
1136_814-N1-BDNA-1_A237CFYLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_814-N1-BDNA-1_A237CFYLT3_1/1136_814-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_814-N1-BDNA-1_A237CFYLT3_1/1136_814-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam.bai,1136_814-T1-TDNA-1_A23WGJTLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_814-T1-TDNA-1_A23WGJTLT4_1/1136_814-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_814-T1-TDNA-1_A23WGJTLT4_1/1136_814-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam.bai,
1136_7L-N1-BDNA-1_A237CFYLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_7L-N1-BDNA-1_A237CFYLT3_1/1136_7L-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_7L-N1-BDNA-1_A237CFYLT3_1/1136_7L-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam.bai,1136_7L-T1-TDNA-1_A23WGJTLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_7L-T1-TDNA-1_A23WGJTLT4_1/1136_7L-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_7L-T1-TDNA-1_A23WGJTLT4_1/1136_7L-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam.bai,
1136_5BE-N1-BDNA-1_A237CFYLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_5BE-N1-BDNA-1_A237CFYLT3_1/1136_5BE-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_5BE-N1-BDNA-1_A237CFYLT3_1/1136_5BE-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam.bai,1136_5BE-T1-TDNA-1_A23WGJTLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_5BE-T1-TDNA-1_A23WGJTLT4_1/1136_5BE-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_5BE-T1-TDNA-1_A23WGJTLT4_1/1136_5BE-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam.bai,
1136_7OO-N1-BDNA-1_A237CFYLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_7OO-N1-BDNA-1_A237CFYLT3_1/1136_7OO-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_7OO-N1-BDNA-1_A237CFYLT3_1/1136_7OO-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam.bai,1136_7OO-T1-TDNA-1_A23WGJTLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_7OO-T1-TDNA-1_A23WGJTLT4_1/1136_7OO-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_7OO-T1-TDNA-1_A23WGJTLT4_1/1136_7OO-T1-TDNA-1_A23WGJTLT4_1.recalibrated.bam.bai,
NA12878_c_0002_gDNA_0005_B23KYWJLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260225_LH00527_0055_B23KYWJLT4__5d8e7d70--20260227-170008/alignments/recalibrated/NA12878_c_0002_gDNA_0005_B23KYWJLT4_1/NA12878_c_0002_gDNA_0005_B23KYWJLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260225_LH00527_0055_B23KYWJLT4__5d8e7d70--20260227-170008/alignments/recalibrated/NA12878_c_0002_gDNA_0005_B23KYWJLT4_1/NA12878_c_0002_gDNA_0005_B23KYWJLT4_1.recalibrated.bam.bai,FFPE_HD789_01_p2_gDNA_03_A23WGJTLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/FFPE_HD789_01_p2_gDNA_03_A23WGJTLT4_1/FFPE_HD789_01_p2_gDNA_03_A23WGJTLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/FFPE_HD789_01_p2_gDNA_03_A23WGJTLT4_1/FFPE_HD789_01_p2_gDNA_03_A23WGJTLT4_1.recalibrated.bam.bai,
869_VZQ-N1-BDNA-1_A23FG3YLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_VZQ-N1-BDNA-1_A23FG3YLT4_1/869_VZQ-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_VZQ-N1-BDNA-1_A23FG3YLT4_1/869_VZQ-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam.bai,869_VZQ-T1-TDNA-1_A23WGJTLT4_2,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_VZQ-T1-TDNA-1_A23WGJTLT4_2/869_VZQ-T1-TDNA-1_A23WGJTLT4_2.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_VZQ-T1-TDNA-1_A23WGJTLT4_2/869_VZQ-T1-TDNA-1_A23WGJTLT4_2.recalibrated.bam.bai,
869_XTN-N1-BDNA-1_A23FG3YLT4_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_XTN-N1-BDNA-1_A23FG3YLT4_1/869_XTN-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0021/20260113_LH00527_0046_A23FG3YLT4__aa3fd045--20260225-014632/alignments/recalibrated/869_XTN-N1-BDNA-1_A23FG3YLT4_1/869_XTN-N1-BDNA-1_A23FG3YLT4_1.recalibrated.bam.bai,869_XTN-T1-TDNA-1_A23WGJTLT4_2,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_XTN-T1-TDNA-1_A23WGJTLT4_2/869_XTN-T1-TDNA-1_A23WGJTLT4_2.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/869_XTN-T1-TDNA-1_A23WGJTLT4_2/869_XTN-T1-TDNA-1_A23WGJTLT4_2.recalibrated.bam.bai,
1136_814-N1-BDNA-1_A237CFYLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_814-N1-BDNA-1_A237CFYLT3_1/1136_814-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_814-N1-BDNA-1_A237CFYLT3_1/1136_814-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam.bai,1136_814-T1-TDNA-1_A23WGJTLT4_2,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_814-T1-TDNA-1_A23WGJTLT4_2/1136_814-T1-TDNA-1_A23WGJTLT4_2.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_814-T1-TDNA-1_A23WGJTLT4_2/1136_814-T1-TDNA-1_A23WGJTLT4_2.recalibrated.bam.bai,
1136_7L-N1-BDNA-1_A237CFYLT3_1,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_7L-N1-BDNA-1_A237CFYLT3_1/1136_7L-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/cgp_dna_exp0024/20260212_LH00166_0244_A237CFYLT3__aa3fd045--20260224-223853/alignments/recalibrated/1136_7L-N1-BDNA-1_A237CFYLT3_1/1136_7L-N1-BDNA-1_A237CFYLT3_1.recalibrated.bam.bai,1136_7L-T1-TDNA-1_A23WGJTLT4_2,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_7L-T1-TDNA-1_A23WGJTLT4_2/1136_7L-T1-TDNA-1_A23WGJTLT4_2.recalibrated.bam,s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/daq/20260529_LH00166_0305_A23WGJTLT4-Recopy-4__e1879c79--20260603-202416/alignments/recalibrated/1136_7L-T1-TDNA-1_A23WGJTLT4_2/1136_7L-T1-TDNA-1_A23WGJTLT4_2.recalibrated.bam.bai,
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48 rows