aScanDocker

Docker image for aScan

USAGE

1. Install docker
2. docker pull the aScan docker imagedocker pull quay.io/pmandreoli/ascan:1.0.3
3. create a directory containing the input files needed by ascan
4. run aScan using docker

 docker run -v /<absolute path to your local data directory>:/home quay.io/pmandreoli/ascan:1.0.3 --rna rnaseq_bamfile --vcf vcf_file --gtf gtf_file [--nametable transcript/gene_correspondence_file] [-p thread_num] [--filter filter_key_word]

e.g

 docker run -v /home/centos/test/aScan/test_dataset:/home quay.io/pmandreoli/ascan:1.0.3 --rna heart_S12_chr19.bam --vcf S12_def_chr19.vcf --gtf hg19_chr19.gtf

5. The aScan output will appear in your local directory at the end of the analysis.