Fluorescence Python Packages

rosettax

Interactive flow cytometry calibration software for fluorescence and scattering workflows, with FCS loading, peak finding, fitting, profiles, and reusable calibration exports.

2K 0 0

fretbursts

Burst analysis software for single and multi-spot single-molecule FRET (smFRET) data.

2K 13 12

opticalmapping

An open-source python library for the processing of fluorescence video data

1K 17 2

cytoflow

A Python toolbox for quantitative, reproducible flow cytometry analysis

1K 221 58

tttrlib

File format agnostic low level, high performance API to read and process time-tagged-time resolved (TTTR) data for single-molecule and image spectroscopy)

1K 23 3

optimap

An open-source python library for the processing of fluorescence video data

1K 17 2

cindra

Provides pipelines for processing neural imaging data and tracking Regions of Interest across multiple recordings.

1K 0 0

labellib

Library for coarse-grained simulations of probes flexibly coupled to biomolecules.

949 10 3

nellie

Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy

909 96 15

corrct

Physically corrected projectors for X-ray induced emission CT.

785 9 3

flika

An interactive image processing program for biologists written in Python.

770 26 2

icsdll

Interface to the image correlation spectroscopy library ICSx64.dll

681 2 1

lifefit

Analyze fluorescence lifetime and anisotropy decays.

631 9 4

cellector

A pipeline and GUI for determining which ROIs match features in a fluorescence image.

588 2 0

papylio

Single-molecule fluorescence trace extraction and analysis

503 1 4

ifpd

An iFISH probe design pipeline, with web interface included.

491 12 6

imswitch

Microscopy control

400 87 39

axoden

Open-source tool for unbiased quantification of labeled axonal projections from microscopy images. Fluorophore- and species-agnostic, using Otsu thresholding. Available as a web app, standalone GUI, and Python package.

343 1 0