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
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You may want to keep updating the original thread for HERA you had created to keep all information about HERA together. People can see the "evolution" of HERA in one place.
Note: Editing a thread automatically bumps it up to main page (if you did not know that).
Genomax: Seems I don't know how to do this "evolution" thread. I just see "add reply"/"add comment".
Edit your original post and add relevant new information. See Lossless ALAPY Fastq Compressor (now for MacOS X with 10-20% improved speed and compression ratio) for example.
Thanks, I have done it! Could you help remove this thread?
Done per request. This is just filler to reach chr limit.