Nothing
coarsen_jsfs
function (#141).cores_per_run
to boot_jaatha
which can be set to use more than
one CPU core for each replica (#128).folded_sums
, which calculates
the standard JSFS coarsening from an unpolarized spectrum (#130).testthat
is not available (#132).final_sim
and zoom_in_steps
to the main jaatha method
(#134).repetitions
was greater than one (#135).
Thanks to Amaya Romero for reporting and locating this bug!.verbose
argument of the jaatha
function (#118).1
and repreat the runs with the new version if so (#124).random
initialization method for using random starting positions (#104).model
and data
in the pars
argument of an jaatha analysis
and removed the corresponding arguments from boot_jaatha
(#105).mc.preschedule
argument of
parallel::mclapply
is now set to FALSE
(#107).block_width
argument to jaatha
(#108).create_jaatha_model.function
and
create_jaatha_model.coalmodel
as functions (#109).coala
.jaatha
as a general method is now more prominent.boot
package for bootstrapping calculations.Jaatha.confidenceIntevals
function. There often
parameters different from the maximum likelihood estimates were used to
calculate the confidence intervals (#15). dplyr
instead of plyr
for converting JSFS into data frames because
it is significantly faster.glm
objects.epsilon
. We now stop the refined search after the
likelihood did not improve for 10 consecutive steps.weight
parameter to down-weight old simulations,
because it had no measurable effect on the estimates.rerun
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