miniQuant features: Optimal use of long and/or short RNA-seq reads: transcript abundance estimation that can be applied to different data scenarios: long-read-alone and hybrid (long reads + short reads) integrating the strengths of both technologies. Fast RNA-seq quantification: less than 15 minutes to analyze unaligned 40 million paired-end short reads + 5 million long reads on a standard laptop computer. Calculate novel K-value metric: a key feature of the sequence share pattern that causes particularly high abundance estimation error, allowing us to identify a problematic set of gene isoforms with erroneous quantification that researchers should take extra attention in the study.