Last documentation update: 2015-02-15

Scope, a two-photon microscope control software with multi-area capabilities

Scope's features

• Frame scanning (sawtooth, bidirectional, plane hopper) with multiple channels in multiple areas
• Resonance scanning
• Analog PMT signal integration (with/without FPGA), photon counting (with FPGA), digital and analog demultiplexing (with FPGA)
• Acquires stacks with a motorized z stage or a fast z device (e.g. an electrically tunable lens or a piezo drive)
• Acquires time series, with trial-to-trial plane hopping, with external triggering, repeats, gated by an external TTL signal, etc.
• Displays overlays of several channels, the current scale, current pixel values, adjustable histograms etc.
• A labbook logging all your recordings and to note down your comments
• The flexibility to use different kinds of hardware configurations, from a cheap one-card-does it all solution to FPGA based multi-area analog demultiplexing.

Contact

Roland Krueppel kruep.nosp@m.pel@.nosp@m.hifo..nosp@m.uzh..nosp@m.ch
Jerry Chen jerry.nosp@m..che.nosp@m.n@hif.nosp@m.o.uz.nosp@m.h.ch

Copyright

Copyright: 2012-2015 by Roland Krueppel, Sievi Lombriser, Jerry Chen - The Helmchen lab, University of Zurich, http://www.hifo.uzh.ch/research/helmchen.html

Download

Clone via Git from http://sourceforge.net/projects/rkscope (email me for access to the code). There are several branches in the repository: resonance/master: most current branch, regularly updated by the Helmchen lab team
roland: my personal branch, implementing some long-term conceptual changes and adding stuff from the resonance branch (mostly untested)
pre_resonance: more or less stable, before resonance code and additional fixes were added
Please post feature requests and bugs as a ticket at https://sourceforge.net/p/rkscope/tickets/

Scope supports

• National Instruments DAQmx (tested: NI-6259, NI-6229)
• National Instruments FPGA (tested: NI PXIe-7962R)
• National Instruments FlexRIO (tested: NI 6587, NI 5771, NI 5751)
• Galvanometric scanners, both regular (most models work out of the box) and resonance (tested: Cambridge CRS 8 kHz)
• Galil motion controllers (tested: DMC-21x3)
• Standa motion controllers (tested: 8SMC1-USBhF)
• Sutter motion controllers (test in progress: MP-285)
• 32/64 bit builds (64 bit not thoroughly tested)

Reminder

I am by no means a professional programmer. Although I have several years of experience there is no guarantee that the designs and algorithms used in Scope are really good solutions. So, good luck. Roland

Please note

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.