Dataset Open Access

Test data for running snakePipes : DNA-mapping workflow

Bhardwaj, Vivek; Heyne, Steffen; Ryan, Devon P; Manke, Thomas

Test files for running snakePipes workflows

snakePipes are pipelines built using snakemake and python for the analysis of epigenomic datasets. Please refer to this link for further information on snakePipes.

This folder contains test files that can be used to run DNA-mapping workflow under snakePipes. To test the workflow, follow the following steps : 

  • Download or prepare genome fasta, indices and annotations for human (hg38) genome.
  • Download and install snakePipes via `conda create -n snakePipes -c mpi-ie -c bioconda -c conda-forge snakePipes`
  • Update Genome configuration file with path to indices and annotations.
  • Move to this repository and run the example command.sh
Files (1.6 GB)
Name Size
command.sh
md5:2a508dc92bff89c7d7458d39a63f59dc
193 Bytes Download
SRR6761495_R1.fastq.gz
md5:a00dae9845bf1ba24a1d258db31f6d0e
129.8 MB Download
SRR6761495_R2.fastq.gz
md5:4b6ba6afc9c72ccfdb766783351949e1
183.9 MB Download
SRR6761497_R1.fastq.gz
md5:226ecc2e9313ad96cdd1b2e5ea74c5a3
202.2 MB Download
SRR6761497_R2.fastq.gz
md5:fd478752920b64a9eef8576839f50d33
273.4 MB Download
SRR6761499_R1.fastq.gz
md5:50aab06dd0a6b842dbfedd0cc7b1c1a8
189.4 MB Download
SRR6761499_R2.fastq.gz
md5:b5431fcdc211cb15d289d2d531235fae
245.1 MB Download
SRR6761502_R1.fastq.gz
md5:0f121fc15acca740bf1a1a9a25b1c0ab
182.2 MB Download
SRR6761502_R2.fastq.gz
md5:94090ae368d2f1f979042d500c26d1f6
221.8 MB Download
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