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Commit 7996e983 authored by nservant's avatar nservant
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[TEST] move samplesheet to assets for test

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...@@ -25,7 +25,7 @@ On release, automated continuous integration tests run the pipeline on a full-si ...@@ -25,7 +25,7 @@ On release, automated continuous integration tests run the pipeline on a full-si
1. Read QC ([`FastQC`](https://www.bioinformatics.babraham.ac.uk/projects/fastqc/)) 1. Read QC ([`FastQC`](https://www.bioinformatics.babraham.ac.uk/projects/fastqc/))
2. Hi-C data processing 2. Hi-C data processing
1. with [`HiC-Pro`](https://github.com/nservant/HiC-Pro) 1. [`HiC-Pro`](https://github.com/nservant/HiC-Pro)
1. Mapping using a two steps strategy to rescue reads spanning the ligation 1. Mapping using a two steps strategy to rescue reads spanning the ligation
sites ([`bowtie2`](http://bowtie-bio.sourceforge.net/bowtie2/index.shtml)) sites ([`bowtie2`](http://bowtie-bio.sourceforge.net/bowtie2/index.shtml))
2. Detection of valid interaction products 2. Detection of valid interaction products
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sample,fastq_1,fastq_2 sample,fastq_1,fastq_2
SAMPLE_PAIRED_END,/path/to/fastq/files/AEG588A1_S1_L002_R1_001.fastq.gz,/path/to/fastq/files/AEG588A1_S1_L002_R2_001.fastq.gz SRR4292758,https://github.com/nf-core/test-datasets/raw/hic/data/SRR4292758_00_R1.fastq.gz,https://github.com/nf-core/test-datasets/raw/hic/data/SRR4292758_00_R2.fastq.gz
SAMPLE_SINGLE_END,/path/to/fastq/files/AEG588A4_S4_L003_R1_001.fastq.gz,
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