nderoo324

Exome Depth CNV Caller 1.0.1

DECoN CNV caller

snpEff

vcftools 0.1.15

BWA & SAMTOOLS pipe

manta 1.0.3

bedtools is a toolkit for dealing with BAM and BED (ex. coverage and intersect)

docker run --rm nderoo324/av [ table_annovar.pl | convert2annovar.pl ]

docker run --rm -it nderoo324/gatk GenomeAnalysisTK

r-base with commonly used packages installed

Andrew's python. Illuminate has compatibility issue with Python 3. So Python 2.7 is being used.

Picard 2.0.1 Container

samtools 1.3

bwa 0.7.12