Welcome to Picasso’s documentation!

This documentation is based on the Nature Protocols publication. Its aim is to cover all the recent updates.

Contents:

• design
  • Design rectangular DNA origami
• simulate
  • Simulate DNA-PAINT image acquistions
• server
  • Functionality
  • Database
  • Localize
  • Server
• localize
  • GPU fitting
  • Identification and fitting of single-molecule spots
  • Temporal median filter
  • Gaussian filter
  • Regions of interest (ROIs)
  • Extra features
  • sCMOS camera calibration
  • Camera Config
  • 3D-Calibration
  • Experimental PSF (cubic-spline) fitting
  • Multichannel 2D Gaussian fitting
  • Analyzing each channel on its own
• filter
  • Filtering of localizations
• render
  • Opening Files
  • Drift Correction
  • Picking of regions of interest
  • 3D rotation window
  • RESI
  • G5M
  • Dialogs
  • Menu items
• average
  • Particle Averaging
• SPINNA
  • Overview of the GUI
  • Structures tab
  • Simulate tab
  • Mask generation tab
  • Command window - batch analysis
  • SPINNA in Python
• filetypes
  • Movie Files
  • HDF5 Files
  • Localization HDF5 Files
  • Molecular maps (cluster centers) HDF5 Files
  • HDF5 Pick Property Files
  • Metadata
  • YAML Metadata Files
• CMD
  • localize
  • render
  • filter
  • design
  • simulate
  • average
  • server
  • spinna
  • average3
  • csv2hdf
  • hdf2csv
  • hdf2ts
  • hdf2imagej
  • hdf2nis
  • hdf2chimera
  • hdf2visp
  • smap2hdf
  • hdf2smap
  • join
  • link
  • clusterfilter
  • undrift
  • aim
  • undrift_fiducials
  • density
  • dbscan
  • hdbscan
  • smlm_cluster
  • g5m
  • dark
  • align
  • groupprops
  • pc
  • nneighbor
  • cluster_combine
  • cluster_combine_dist
  • plugins
• Postprocessing
  • Jupyter Notebooks
• nanoTRON
  • nanoTRON Train
  • nanoTRON Predict
• Plugins
  • Usage
  • For developers
• Other
  • Sound notifications
  • GitHub
  • PyPI
  • One click installer (Windows)
  • One click installer (macOS)
  • Error log

Indices and tables

• Index

• Module Index

• Search Page