CHANGES IN VERSION 1.2.0 ------------------------ o Renamed class TxVariants to SGVariants o Renamed class TxVariantCounts to SGVariantCounts o Renamed findTxVariants() to findSGVariants() o Renamed getTxVariantCounts() to getSGVariantCounts() o Parallelization is now controlled with a single cores argument o Argument max_complexity for predictTxFeatures() controls skipping of problematic regions o getBamInfo() is no longer run as part of analyzeFeatures() o getSGVariantCounts() now supports obtaining counts from BAM files o Bug fixes and other improvements