Following version 1.0, we are now releasing Hera version 1.1 (code name: Hermes) that improves running time performance. In particular, Striped Smith-Waterman alignment and some technical improvements in the EM implementations allow Hera to reduce 30% of its running time. With 30 bootstraps on 60M reads with 32-core CPU, Hera 1.1 takes 2m45s, even faster than other pseudo-alignment approaches for transcript quantification.
We would like to thank the community for bug reports. In this 1.1 release, we have fixed all of your reported bugs in Hera 1.0.
[Hera, a fast and accurate algorithm (developed by BioTuring) that maps spliced RNA-seq reads to a genome/transcriptome while simultaneously estimates transcript abundances, detects gene fusions, and outputs alignment files for visualizing and variant calling purposes.]
Version 1.1 is released under MIT license: https://github.com/bioturing/hera
Son Pham
