diff --git a/README.md b/README.md index 12b1e482024663a957e4eb687a01ad697af86296..6f3ba21cc2ae83aaa692aabee44bc819008af87a 100644 --- a/README.md +++ b/README.md @@ -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/)) 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 sites ([`bowtie2`](http://bowtie-bio.sourceforge.net/bowtie2/index.shtml)) 2. Detection of valid interaction products diff --git a/assets/samplesheet.csv b/assets/samplesheet.csv index 5f653ab7bfc86c905b720d2bb8708646bb66366e..e699919c0e9610e4082734cdd164b3629cb8c4a2 100644 --- a/assets/samplesheet.csv +++ b/assets/samplesheet.csv @@ -1,3 +1,2 @@ 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 -SAMPLE_SINGLE_END,/path/to/fastq/files/AEG588A4_S4_L003_R1_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