Wham is suitable for paired-close Illumina libraries with conventional insert dimensions (~300bp-500bp). Wham integrates mate-pair mapping, break up read through mapping, smooth-clipping, alternative alignment and consensus sequence primarily based evidence to predict SV breakpoints with solitary-nucleotide precision. Wham generates a combined pileup (catalog of reads covering a position of your genome) for all BAM files supplied. Reads from all persons included in joint contacting which are gentle or tricky clipped are hashed by situation to determine shared breakpoints. Positions in the pileup the place three or more Most important reads share a similar breakpoint are interrogated for a putative SV.
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