Open madagiurgiu25 opened 2 years ago
@yukiteruono , I have merged the feature into the master branch. The code builds successfully (see --circular option
):
./src/pbsim
USAGE: pbsim [options] <reference>
<reference> FASTA format file (text file only).
[general options]
--prefix prefix of output files (sd).
--id-prefix prefix of read ID (S).
--depth depth of coverage (20.0).
...
[options of model-based simulation].
--hmm_model HMM model of quality code.
--length-mean mean of length model (9000.0).
--length-sd standard deviation of length model (7000.0).
--accuracy-mean mean of accuracy model (0.85).
--circular circular genome (0).
to enable this use 1.
Hi,
I wanted to simulate reads using pbsim2, but on a circular genome. Thus, I thought could be a useful feature for your package. For this, I adapted the template to be circular and choose mersenne_twister_engine as random number generator to sample uniformly the start of the read (offset).
Best, Mădălina