mnegri-ov198

This repository holds scripts and raw data used by the publication:

Paracchini L, Mannarino L, et al., Oncotarget (2016), in press.

and it is divided in several subdirectories:

• config: Includes configuration data for bcbio-nextgen
• data: Includes results (VCFs) and other data files

Data files

The data files included are as follows:

• all_genes.bed: BED file containing all the regions used in the experiment
• all_somatic_variants.vcf.gz: The complete file containing all the variants analyzed
• all_somatic_variants.vcf.gz.tbi: tabix index for the above file
• phylogeny_table.txt: Allelic fraction table used to generate the phylogenetic trees

See also

Additional data files were taken from https://github.com/lbeltrame/mnegri-ov170 as they were also part of the previous publication.