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Crisprseq adding mageck rra contrasts #1032

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merged 4 commits into from
Nov 3, 2023
Merged

Crisprseq adding mageck rra contrasts #1032

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be69d17
fix the commas..
LaurenceKuhl Jun 9, 2023
543021a
Add contrasts for mageck rra
LaurenceKuhl Oct 24, 2023
3077204
Merge branch 'crisprseq' into crisprseq
LaurenceKuhl Oct 25, 2023
0585d00
Add commas
LaurenceKuhl Nov 2, 2023
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12 changes: 6 additions & 6 deletions testdata/full_test/samplesheet_full.csv
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Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
sample;fastq_1;fastq_2;condition
SRR8983579;s3://ngi-igenomes/test-data/crisprseq/SRR8983579.fastq.gz;;control_A
SRR8983580;s3://ngi-igenomes/test-data/crisprseq/SRR8983580.fastq.gz;;control_B
SRR8983581;s3://ngi-igenomes/test-data/crisprseq/SRR8983581.fastq.gz;;drugA
SRR8983582;s3://ngi-igenomes/test-data/crisprseq/SRR8983582.fastq.gz;;drugB
SRR8983583;s3://ngi-igenomes/test-data/crisprseq/SRR8983583.fastq.gz;;drugC
sample,fastq_1,fastq_2,condition
SRR8983579,s3://ngi-igenomes/test-data/crisprseq/SRR8983579.fastq.gz,,control_A
SRR8983580,s3://ngi-igenomes/test-data/crisprseq/SRR8983580.fastq.gz,,control_B
SRR8983581,s3://ngi-igenomes/test-data/crisprseq/SRR8983581.fastq.gz,,drugA
SRR8983582,s3://ngi-igenomes/test-data/crisprseq/SRR8983582.fastq.gz,,drugB
SRR8983583,s3://ngi-igenomes/test-data/crisprseq/SRR8983583.fastq.gz,,drugC
2 changes: 2 additions & 0 deletions testdata/rra_contrasts.txt
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Original file line number Diff line number Diff line change
@@ -0,0 +1,2 @@
treatment;reference
SRR8983579;SRR8983580