jClamp for Windows (v. 21.11.0) is a
user-friendly whole-cell voltage clamp data acquisition program which features
real time monitoring of cell and voltage clamp characteristics. At all times
the patch clamper can determine cell status. Data collection is initiated
through a rapid parameter directory (RPD) which maintains a list of 18
parameter filenames or script filenames. Either a key press or mouse click
begins the predefined voltage or current delivery protocols. Scripts are text
files which allow groups of parameter files to be called and run. Most tasks
are automated. Some data analysis is available. In addition, automation links
with MATLAB, Excel, SigmaPlot and Origin are
available
-
jClamp32 - $1,400 for educational institutions.
Contact me for non-ed costs. As always, free updates. Please cite jClamp in
your published manuscripts.
Attention
parents! Get Merlin Programmer
for Kids, a FREE fun program I wrote to help kids ages 5-8 learn how to
program within Windows and hopefully (ultimately) help support their higher
education!
· jClamp
is now FREE to use with the Axon 1200A & 1200B and the old Labmaster DMA!!! See supported hardware for more
information Email me so I can keep track of users.
· Nanion Port-o-Patch support is here!
· You
can see supported hardware info (here).
· You
can see the detrending for CM analysis technical note
(here).
New Feature Update
· Support for both Axon Multiclamp 700A and 700B telegraphs. Previous version only supported
the 700B. See the jClamp help file under Telegraph.
· Support for new board, NI USB X
Series. Amazing! 1 megaHz 16
bit sampling on all 8 channels without multiplexing. Synchronous digital
output. About $3K. Could not ask for
more. The new NI-DAQmx 9.3 drivers need to be installed. Visit NI at http://joule.ni.com/nidu/cds/view/p/id/2337/lang/en.
· User
info (License owner, board, operating system, disk size and memory) collected
when check for updates occurs. Useful
for me to identify user issues and aid in debugging.
· Automatic
or manual check for new version of jClamp on the web – set choice in ini file under Script Tab.
· Impedance
analysis with Nyquist/Bode Plots and model fitting
· Additional
script commands to control CC window parameters
jClamp Features
· Vista
and Win7 users must disable User Control Account in Users Dialogue!
·
In-cell stray capacitance compensation for Cm
measures.
· Digital flip-flop overrides partition digital out in command
protocol.
·
Look32X! video capture with cameras and devices
with DirectShow or VFW drivers. Synchronized video capture with
electrophysiological data (as best as Windows will allow! TIFF and other image
file support.).
·
FastLook! -- Andor (www.andor.com) camera support and Prosilica Gige (www.prosilica.com) vision camera support.
Link video frame capture to patch clamp data collection. Synchronized data for
each frame. Export automatically to ImageJ for video
analysis. Combined with jClamp or standalone program available.
·
CellSeeker and MagicSeal coming soon!
·
Automatic offset current cancellation
·
User control over audio feedback during seal
formation.
·
Enhanced P/N subtraction.
·
·
Switch polarity for whole cell or inverted
patch in CC window.
·
Disable dual patch mode in CC for stimulation
with channel 0 or 1 D/A while recording from channel 0
·
·
Removal of stray capacitance effects on calibration
and during cell recording for Cm analysis
·
Plots of Real and Imaginary components of raw
currents
·
Simple way to set angle of dRs/dY-90
or angle of dC/dY in Phase
detector Admitance Window, and angle will be used by
single sine protocol to get Magnitude at 0 and 90 degree phase for C and R
analysis. Note that using Rs compensation (or an Rs dither) and C compensation (or a C dither) for dithering
is a poor method for dithering actual Rm and Cm if Rm is not much greater than Rs,
or if Rm or Cm changes substantially during your
experimental measurements -- the limitations of single sine analysis
·
Non-harmoninc two
sine stimuli to avoid nonlinear distortion interference with Cm measures.
·
Free support for the Axon 1200A and B boards
that Axon no longer supports with their new software! See supported hardware
for more information.
·
Support for the IOtech
PersonalDaq. It is a great board (~ $1,400)
with many capabilities, close to the Axon 1440 series.
·
·
Detached Telegraph window with only the
enabled channels (from 1-4 for each of the two supported amplifiers) displayed.
·
Vista and Win7 support
·
Detached PDF Help file in addtion
to Windows Help file. You can search and print out the help file.
·
Separate Audio program (jc_audio.exe)
for recording/playing MS wav audio files, which can be played during script
execution now, since Windows Vista does not
include one.
·
Multiple instances of jClamp can be run, each
controlling a different A/D D/A board! Or use another instance to analyze data
while the first instance is actively collecting data.
·
Frequency analysis can successfully monitor
bilayer prep capacitance, making jClamp a good choice for these types of studies
·
Cell Censor window provides full cell
parameter analysis either in Time or Frequency domain
·
· Axon Multiclamp
telegraph support.
· User selectable
channel input for telegraphs.
· Real time, scalable
plotting of Cm or Im vs
time or voltage collected with protocols.
· Support for Axon
1440 series!
· Support for
National Instruments M series boards. NI 6251-USB and NI PCI-6221, in
particular.
· NI boards that use
Ni-daqmx driver (M series and also the PCI-6052E) and
Axon's 1320 and 1440 series now can have dual analog output and up to 8 input
channels.
· The NI PCI-6221
board is used by Neobiosystems to control their ( PatchMAX
100A ) and jClamp will work with their system to provide user friendly
patch clamp and two electrode voltage clamp solutions.
· User choice of
Dual frequency Cm calulation from f1, f2, or aveage of both.
· Phase Sensitive
Detector (PSD) exposed for phase analysis.
· Automatic fusion
event analysis.
· Easy capacitance
measures – new method based on actual angle of dY/dCm – perfect at last!!.
· Average after all
episodes are run or average each episode before continuing to the next
episode..
· Smart averaging –
only average as many runs as required to reach a desired signal to noise
ratio!.
· More flexible
delivery of frequency stimuli.
· Axon 1322A
support.
· Storage view in
Analysis mode – view two data file plots simultaneously (previously opened and
current) .
· Independent
analysis and data collection CM calibrations file loading.
· Streamlined
generation of command protocols from ABF data files .
· User choice of detrending of raw data prior to CM analysis (Technical Note
released) .
· NI PCI-MIO-16E-1,
NI PCI-MIO-16E-4 support.
· Fitting with user
supplied equations.
· Now measure
capacitance with either 2-Sine analysis or Phase tracking.
· Very detailed information
for all files in data directory in data load window when info button is
pressed.
· IV plot window
calculates reversal potential, and slope resistance; multiple I-v plots for
comparison.
· Quick notes window
allows button click insertion of pre assembled, often
used notes into the log file.
· Conditional
scripting with parameters from Cell Censor. For example, wait for membrane
resistance to reach a certain value before running a protocol.
· DCM files are only
saved when enabled in ini file under History tab.
·
CED Power 1401 support. Four DAC outputs; control four patch
clamp amplifiers. Channel watch channels moved from 2-5 to 4-7 for all boards.
Shell out (from Data Load window) to Adobe Acrobat or reader to look at lab
notebooks. I suggest that you scan in your hand written notebooks as an image
and place a PDF conversion into each day's data directory for viewing. NT and
2000 support for Labmaster DMA and Daqp 308 boards. jClamp for the old Labmaster
DMA board is FREE!!! No license needed. Great for student labs!!!! Break out
those old boards and put them in some new, fast and cheap computers.
·
jClamp for the Labmaster DMA is free --
no license required. Remember the free license is only available when the ini file is set to use the Labmaster
board or axdd1200 board (under gain tab). Set the proper address for the Labmaster! The Labmaster board is
controlled exclusively through Port I/O witht the
jClamp VXD or SYS driver. The only differences with the hardware setup required
by pClamp is that the ports A0-A7 should all be
configured for output. A7 is scope trigger. See the hardware manusal. B0 is trigger input. C channels are not used.
2-sine protocols are supported. Win 2000/XP Pro performance is superior. The
Axon 1200 board needs the DriverLinx installation (NT
version for Win2000 and above). Axon supplies the drivers. Email me if you have
a problem getting them. Axoscope 9.0.2.05 supports
the board, so you must use that program to verify that everything is working
before using jClamp. Normally, if there is no hardware license the registration
window will appear, indicating that the license is software only or that so
many days are left in the hardware fulldemo license.
For the free labmaster or Axon 1220 support, there is
no license, so the register window will open. If you want to bypass that window
you may create a shortcut on the Windows desktop to jclamp32.exe, as you would
do for any other program. The shortcut made during jClamp installation cannot
be edited, you need to create an editable one by going to the jClamp directory
and right ckick over the jClamp32.exe file and send
shortcut to the desktop. Then you can edit the new shortcut. In the properties
window, target line, you should append the word "skip_reg".
For example, <"C:\Program Files\jclamp32\JCLAMP32.EXE" skip_reg> is taken from the target line of a shortcut.
It will run jclamp but not display the registration
window. You could also specify a particular ini file
other than the default jclamp32.ini by doing the following.
<"C:\Program Files\jclamp32\JCLAMP32.EXE" my_ini_file.ini skip_reg>. Note there is a space after the executable
name and between the ini filename and "skip_reg".
·
Multiple stopwatches.
·
Streaming video capture and playback; record video during data
collections; control through script or via Look! video window. Screen shots
available from scripts.
·
CM calibration changed to provide more resolutions. accalib.prm and accalibi.prm
are revised. Please recalibrate to use extra resolutions. Remember to check
proper function with electrical model!!!!!
·
Channel watch is functional (if enabled) even when CC is not
running.
·
Conditional scripting. Continue scripting after switch from/to
current/voltage mode or based on values obtained from analog Channel Watch
(e.g. based on temperature change reading).
·
Ability to transfer voltage clamp holding current to current
clamp upon mode switch. Also, current clamp membrane potential to voltage
clamp.
·
Ability to set all partition start voltages/currents to holding
level in Command Build Utility. Useful when passing hold from Cell Censor to
protocol.
·
Better memory management in Win 98. IniEditor
can now be opened from within jClamp without "out of memory" error.
Tested with 128 Meg memory system.
·
Automation link with SigmaPlot 2000,
Excel 9, MATLAB 5.3 and Origin 6. Rapid data transfer and plot generation. May
work with some earlier versions. Enable use for each program seperately in jclamp ini file. Scripting of application commands in jClamp analysis
scripts.
·
Two sine FFT based CM tracking now supported under current clamp.
·
Ability to use data file (abf) traces
as commands in Command Build utility. Automatic generation of command parameter
files from abf data files. For example, immediately
stimulate cells in current clamp with currents obtained under voltage clamp.
Also, FFT can now be computed on any portion of data trace with automatic zero
padding.
·
Support for the National Instruments PCI-MIO-16EX-10 (10 usec) and PCI-6052E (3 usec)
boards, 16 bit A/D, D/A-- boards with breakout about $2K.
·
Support for the IOtech daq2000 PCI
board. 16 bit A/D, D/A @ 100kHz -- board is $500! Cabling and breakout extra.
Important -- contact me before getting one (there is a glitch on analog out).
·
High time and magnitude resolution capacitance measures during
episodic protocols! Measure capacitance, Rs, Rm simultaneous with your favorite step, ramp or AC
protocols. Automatic analysis. Episode length up to 1 million pts for Axon boards and IOtech
daq2000 -- measure voltage induced capacitance changes up to 10 seconds per
episode (@ 10 us clock)! 10 million pts for National
Instruments boards!
· Real
time monitoring of cell and clamp characteristics in Cell Censor Window. Full
control over two patch clamps. Channel 0/0 [A/D- D/A ](patch clamp #1), channel
1/1 [A/D - D/A] (patch clamp #2), both channels or junctional
coupling possible. Pseudo-simultaneous measures under current and voltage clamp
on channel 0 and 1 in Cell Censor. Automatic pulse polarity flip-flop for
charge buildup control.
· Four
additional channels can sample peripherals (e.g., pressure monitor) at user
selected rates
· Works
with either the DigiData 1200, 1200A or 1320 series
boards from Axon Instruments, Labmaster DMA, IOtech daq2000, National Instruments PCI-MIO-16EX-10 and
PCI-6052E boards or Quatech DAQP-308 PCMCIA -- have
Lap can Clamp!
· I
suggest a Hauppauge video capture card - you can get them without the TV tuner
for less than $100.
Connect
to Hauppauge to
check out the Hauppauge WinTV PCI video boards
Connect
to NI
to check out the PCI-MIO-16XE-10 board and connection hardware
Connect
to NI
to check out the PCI-6052E board and connection hardware
Connect
to Iotech
to check out the daq2000 board and connection hardware
Connect
to Axon Instruments
to check out the 1320 series systems
Connect
to Quatech to check out the Daq-308 PCMCIA card and
connection hardware
Connect
to CED to check out the CED
Power 1401
Connect
to Scientific Solutions
to check out the new Labmaster Boards and connection
hardware
· Convert
digital outputs to analog outputs with the optional DAX (D/A eXtra) hardware add-on. Control up to four more amplifiers.
Monitor seal formation, set holding potentials, monitors cell characteristics,
synchronous episodic delivery.
· Four
channel graphical history display of selectable cell and clamp characteristics
- time window user adjustable.
· Graphically
view seal formation with frequency varying audio cues.
· Customizable
initialization settings for individual users - including graphic ID in Cell
Censor window. Separate initialization file editor.
· Automatic
data directory naming, file naming and saving.
· Powerful
graphical voltage/current protocol build utility. Episode length up to 10
million for National Instruments boards, 1 million pts
for Axon boards and IOtech daq2000, 128k pts for Labmaster and DAQP-308.
Step, ramp and AC stimuli (one, two or three sine; chirp). Dual command
protocols support simultaneous current and/or voltage clamp. Gap free
collection is supported. Full command waveform scaleable
based on user scale factor set in INI file. For example, with a button press
increase or decrease the wave form magnitude by a factor of 2 about the holding
level. Additionally, toggleable timing increments by
a factor of 2. Automatic saving of individual runs during averaging.
· Protocols
can be run at the press of a key or click of a button. External file based user
stimulus incorporation. Arbitrary number of input channels and order of input
channels in parameter files. Analog output is through channel 0 or channel 1,
or both simultaneously. Each parameter file contains information for separate
and distinct command waveforms for each output channel. Random episode
delivery; auto supplemental A/D gain (1-8X) {Axon 1200, DAQP-308 and daq2000 boards};
dual telegraph inputs to control gain and clamp type, and monitor capacitance
and filter frequency.
· Digital
output during, before, after or synchronous (depends on board) with analog
output.
· TTL
or key triggerable starts - full run or individual
episodes.
· Text,
audio and video (time lapse grabs, or linked to data collections[after each
average, or episode]) clips can be saved, and easily retrieved and played
during analysis. Any Windows compatible cards with wav audio drivers and video
for Windows drivers will work.
· Script
files can run individual protocols or loops can be programmed; wait periods are
allowed between protocols and during these periods cell and clamp
characteristics are continuously monitored and saved to disk. Control holding
potentials (main board and DAX); output serial port commands, e.g. to control
external hardware [GPIB under construction]; set digital out ports; trigger
video capture or time lapse capture.
· Scripts
can be automatically canceled if one or more particular cell or clamp
characteristic crosses a predefined threshold; e.g., if resting membrane
resistance (Rm) drops below 50 Mohm
or if electrode resistance rises higher than 40 Mohm.
· Analysis
features are smooth and graphical. Axes or scale bars. User text on plot.
Episode math, file math, fitting of exponentials, Boltzmanns,
FFT. Residual series resistance correction, cursor based analysis, IV plots, togglable leakage subtraction (view raw or subtracted traces),
x-axis data shifts. Exporting of data to abf, atf, ascii, or matlab. Copy plots to clipboard for paste in word
processors. Trace comparator - combine traces from Analysis window into new
window for comparison across files.
· Data
file loading is enhanced by the ability to view key items in the file before
loading; e.g. data owner, cell and clamp characteristics immediately prior to
data collection, parameter file name, sampling clock, number of channels etc.
· All
data collected can be summarized in printed form. Each protocol and associated
data traces are printed along with key protocol parameter information - four
data files per page. All cell and clamp characteristics for each cell studied
are plotted versus time.
· Data
files can be selected by parameter filename and printed or plotted on screen
(plots have selectable interplot periods and a pause
feature).
· Each
data file has appended the parameter file in ASCII format, allowing the display
of all information in the build utility during data loading. Key ASCII
information can be searched for and files save to a new directory for group
analysis.
· Logging
implemented. Recall and play (abf, cc, cm, not
[audio, video, text, cc clip] ) files from log window with button click. Search
logs for information. Show all logs on disk. Edit them. Log is run from Main
menu bar in jClamp (when in Analysis mode), or can be run as an independent
program (jc_log.exe).
· Capacitance
tracking allows monitoring of cell characteristics using two sine FFT based
analysis with analog and/or digital stimulation (prepulse,
incrementing pulse, ramp) at 2.5 or 5ms resolution and noise of 10fF (model
cell with 200 MHz Pentium). Additionally, capacitance, Rs,
Rm can be measured simultaneously with your favorite
step, ramp or AC protocols. Automatic analysis. Very powerful feature!
· Analysis
scripts. (under construction)
· Binary
save of Cell Censor and CM tracking data files. Faster save and load, and
smaller size. Ability to save in ASCII format set in INI file.
· "Screen
Shots" to save jClamp window arrangements for instant retrieval;
Collapsible Cell Censor window. Sizable plotting window during data collection
(drag to size). Unobtrusive RPD window, updated searchable help file (including
help on the new features). Screen shots can be loaded at the command line in a
shortcut -- "jClamp.exe myinifile.ini collect.scn"
will bypass the Identity login form and load the saved sreen
format.
· jClamp32
- $1,400 for educational institutions. Contact me for non-ed
costs. As always, free updates. Please cite jClamp in your published
manuscripts.
Files may be downloaded for a
trial examination.
email me for a username and password;
please include your affiliation, operating system and hardware.
I suggest a fast computer (>1GHz), at least
512 Meg memory, and fast video! jClamp is a large program. It works best in Win
NT, 2000, XP, Vista or Win7 - for those boards which can work in these
environments. Cm tracking with the Axon 1200 board has problems in Win NT if
run from Cell Censor but not within command protocols. All will work in W95/98,
however.
|
Name
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Last Modified
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Size
|
Description
|
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jClamp
Help file
|
10-May-2008
|
1.8M
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jClamp Help file
(jclamp32.chm); to view you may need to unblock in the security tab of the
file properties
|
|
|
|
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FastLook! Help file
|
2-Mar-2010
|
1.0M
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FastLook! Help file (fastlook.chm); to view you may need to
unblock in the security tab of the file properties
|
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Supported Hardware
|
1-Jan-2008
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5K
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install information
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getting_started.htm
|
1-Jan-2008
|
1K
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Getting started and Labmaster
DMA support
|
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jClamp32_v21.11.0.msi
|
29-Jul-2011
|
31M
|
New 32 bit (v 21.11.0) version setup files [make sure to
check below for an updated jc_exe.exe]. The new
jClamp version will work in Windows Win7/Vista/XP/NT/2000/Me and /98. See
above for features. Per-machine license required. Software demo license
included. Time-limited hardware license see below. Read getting started.
|
|
jc_exe_v?.exe
|
Whenever
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1.1M
|
New 32 bit executable (do not use with previous versions
before the latest posted full install - look here for newer executables - the link will be empty if no update
exists). The file has a version that indicates the version of extracted
jClamp32.exe. Place in jclamp32 directory, double-click to extract
jclamp32.exe and select overwrite to replace the old version. No need for
full install if posted full version was installed. jClamp will check
automatically to see if a new version is available.
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ax_driv.TXT
|
23-Oct-2000
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1K
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installed Axon driver files
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fulldemo.lic
|
Monday
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1K
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30 day hardware license for evaluation of jClamp or FastLook. Rename to jclamp32.lic and replace the
software-only license file in the jclamp32 directory, or rename to fastlook.lic and replace the software-only license file
in the fastlook directory.
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detrending
|
14 Feb 2003
|
500K
|
Technical Note on detrending
data before FFTing for CM analysis. User can now
choose whether to use detrending.
|
|
Connect to Axon Instruments to
download Axoscope and the Digidata drivers for
Win95/98 and WinNT
Copyright
© 1996-2011 J. Santos-Sacchi [SciSoft]
Last modified: Jul 6, 2011