Supporting data for "16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model"
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Luo, R; Schatz, M, C; Salzberg, S, L (2017) GigaScience Database. http://dx.doi.org/10.5524/100316

Summary:
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16GT is a variant caller for Illumina whole-genome and whole-exome sequencing data. It uses a new 16-genotype probabilistic model to unify SNP and indel calling in a single variant calling algorithm. In benchmark comparisons with five other widely used variant callers on a modern 36-core server, 16GT demonstrated improved sensitivity in calling SNPs, and it provided comparable sensitivity and accuracy for calling indels as compared to the GATK HaplotypeCaller. 16GT is available at https://github.com/aquaskyline/16GT.

Files:
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16GT-master.git - Archival copy of the 16GT software, downloaded 10-Jun-2017, from Github Repo https://github.com/aquaskyline/16GT please visit GitHub for most recent updates.
16GT.vcf - Variant identified using 16GT
Fermi.vcf - Variant identified using Fermikit
Freebayes.vcf - Variant identified using Freebayes
HaplotypeCaller.vcf - Variant identified using GATK HaplotypeCaller
Isaac.vcf - Variant identified using ISAAC
NA12878.mem.bam - NA12878 BWA-MEM alignment
N+P.auto.bed.gz - NA12878 GIAB-2.18 truth dataset
P.vcf.gz - NA12878 GIAB-2.18 truth dataset
UnifiedGenotyper.vcf - Variant identified using GATK UnifiedGenotyper
VarScan.vcf - Variant identified using VarScan2