TutorialsStep-by-Step Tutorials

Getting the Sample Data

View as Markdown

Download the sample data with the following command. This data will be used in the tutorial examples.

1$ wget -O parabricks_sample.tar.gz \
2"https://s3.amazonaws.com/parabricks.sample/parabricks_sample.tar.gz"

The tar file is 11GB and, when extracted, an additional 16GB.

Extract the data with this command:

1$ tar xvf parabricks_sample.tar.gz 
2parabricks_sample/
3parabricks_sample/Data/
4parabricks_sample/Data/markdup_input.bam
5parabricks_sample/Data/sample_2.fq.gz
6parabricks_sample/Data/sample_1.fq.gz
7parabricks_sample/Data/singled_ended.bam
8parabricks_sample/Ref/
9parabricks_sample/Ref/Homo_sapiens_assembly38.fasta
10parabricks_sample/Ref/Homo_sapiens_assembly38.fasta.pac
11parabricks_sample/Ref/Homo_sapiens_assembly38.fasta.ann
12parabricks_sample/Ref/Homo_sapiens_assembly38.known_indels.vcf.gz.tbi
13parabricks_sample/Ref/Homo_sapiens_assembly38.fasta.amb
14parabricks_sample/Ref/Homo_sapiens_assembly38.dict
15parabricks_sample/Ref/Homo_sapiens_assembly38.fasta.fai
16parabricks_sample/Ref/Homo_sapiens_assembly38.known_indels.vcf.gz
17parabricks_sample/Ref/Homo_sapiens_assembly38.fasta.bwt
18parabricks_sample/Ref/Homo_sapiens_assembly38.fasta.sa

You are now ready to try the example commands shown in the rest of the Tutorials section.