Hadrien Gourlé

Hi! The included Hiseq model is based on a slightly worse than average Hiseq run for us here. While the average read read quality is around 35, the average quality...

Hi! Thank you for reporting this. I'll keeo this issue in mind and try to improve how temp files are handled in a future release. Meanwhile if it's a big...

Hej folks! Thanks for reporting and trying to debug this. I just came back from vacation and will take a look. /Hadrien

Hi! InSilicoSeq was not designed with exome sequencing in mind. My guess would be that your coding sequences are very small compared to microbial genomes, and therefore InSilicoSeq is oversequencing?...

Hi! InSilicoSeq is aimed at simulating reads from whole metagenomes. For amplicons you could try [biogrinder](https://github.com/zyxue/biogrinder). While less realistic in quality, grinder has some nice amplicons features, such as adding...

While wanting to create example data, I checked the most abundant git bacteria. Very few of them have a complete genome available. For having presets we'd need the possibility to...

Hi! Not at the moment, but this is a good idea. I'll keep this issue opened and try to include it in a future release. Best, /Hadrien

Hi! Thanks for reporting this. There seems to be a lot of problems coming for the newest version of Biopython, which deprecated many things in a minor release and this...

Hi! Could you tell me which version of both InSilicoseq and numpy you are using? you can check numpy's version number interactively with: ```python import numpy print(numpy.__version__) ```

At the moment you can't run krona in offline mode, that's an oversight on our part. I'll put this on the 1.1.0 release that should be out soon. Thanks for...