Version 0.6.5

See release notes for details.

Version 0.6.4

See release notes for details.

Version 0.6.2

See release notes for details.

Version 0.6.1

See release notes for details.

Version 0.6

See:

http://fretbursts.readthedocs.io/en/latest/releasenotes.html#version-0-6-jan-2017

0.5.7

Remove rc1 from release notes

0.5.7rc1

DOC: fix release notes for 0.5.7rc1

Version 0.5.6

What's new?

ALEX

• Print number of photons in each photon streams when applying ALEX parameters (1bf7651)

Plots

• Add argument rightside_text to alex_jointplot to print measurement name on the right side of the plot (commit 2229a1a).

Photon rate estimation

• Introduce c parameter to modify the rate estimator definition in burst search (see docs).
• Introduce the same c parameter in functions computing photon rates
  (phrates.mtuple_rates, Data.calc_max_rate, etc..).

See also this notebook for a study of the estimator properties as a function of c.

S correction formula

A new correction formula for S has been derived in this notebook. The formula allows to go from uncorrected S (only background correction, no leakage, direct excitation and gamma) to fully corrected S (including leakage, direct excitation and gamma).

This formula is a new updated version that to our knowledge was not published before and is now implemented in FRETBursts as fretmath.correct_S (see code and docs). This formula takes as argument the raw uncorrected E and S (only background corrected) as well as the 3 correction coefficient (gamma, D leakage and A direct excitation).

Documentation

Many updates to documentation and notebooks.

Version 0.5.5

What's New?

• In Data.status(), report leakage coefficient in % for consistency with direct excitation.
• Update alternation histograms style (now non-filled by default).
• Notebooks: copy editing and lots of improvements to text in us-ALEX notebook.
• Added documentation for all ratetrace and timetrace arguments.

Version 0.5.4

What's New?

• Updated and expanded fitting section in us-ALEX notebook.
• Implemented KDE-based methods for photon rate computation in cython and (optionally numba) including tests.
  Available kernels are Laplace distribution (i.e. exponential), Gaussian and rectangular. See the documentation.
• Example notebook implementing 2CDE from Tomov 2012.
• Renamed burstsearch folder to phtools. The folder now includes both burst search and other timestamps functions (such as photon rates). Imports of fretbursts.burstsearch.burstsearchlib need to change to frebursts.phtools.burstsearch.