Process Illumina PE sequence data to call SNPs and small and large structural variants.
Create variant matricies
Call drug resistance
Comprehensive in silico genotyping
Aligned to one genome, then the unaligned sequences may be aligned to a second genome. This is useful when complex, mixed clinical samples have been sequenced.
Deconvolute alignment files
Call SNPs and small structural variants
Using a variant matrix and a phenotype perform GWAS using a linear, logistic, ordinal regression or efficient mixed-model association. Epistatic interactions can be included.
Outlines for machine learning techniques