levim/dsprepro repository overview

Ubuntu 16.04 Java7/8 Python 2/3 R Snakemake FastQC 0.11.5 Trimmomatic 0.36 GATK 4.0 GATK 3.5 Samtools 1.7 Picard 2.18 Bedtools2 (latest) Bamtools (latest) BWA 0.7.16 STAR 2.5.1 HTSeq 0.6.1p1 subread 1.5.1 Kallisto 0.44 MuTect 1.1.5 Strelka 1.41 Manta 1.3.2 Strelka2 2.9.2 VarScan 2.4.3 SomaticSniper (latest) snpEff 3.5 snpEff 3.6 snpEff 4.1