jClamp for Windows (v.
22.5.0) 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, an absolutely FREE fun program I wrote to help my kids (now 16) and
yours (ages 5-8) learn how to program within Windows (should work even in Win7)
and hopefully (ultimately) help support their higher education, but more
importantly help them to think logically!
· 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
· Cs
stray capacitance compensation prior to cell pop-in disabled.
Replaced by robust in-cell
stray capacitance compensation using MD (multi-dual) sinusoidal stimulation (see
help file).
· Molecular
Devices releases new Axoscope (pClamp)
10.3.1.4 with new DLL to fix spurious voltage output, and allow digital output
during 4 DAC output. jClamp v22.5.0 uses this fix.
·
Support for the Tecella Pico USB patch clamp
amplifier (www.tecella.com). Up to four units running
simultaneously.
· Support for 4 DAC
outputs for those boards that have four DACS, including the Axon DigiData 1440A, IOTech Personal Daq, and
soon the CED Power.
· The previous full version was the last one that supports
only 2 DAC channels. Future versions (coming soon) will support 4 DAC
outputs for those boards that have four DACS, including the Axon DigiData 1440A, IOTech Personal Daq, and CED Power.
· jClamp
will now automatically startup with the last ini file
selected in the Identity window. An edited shortcut will override last selection
if different. Remember, to make an edited shortcut linking directly to your ini file, edit a newly created shortcut Target property by
placing your ini file (e.g., my_ini_file.ini) at the
end of the target command with a space in between the two. To access the
properties of a desktop shortcut, right click and select properties.
· 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.
·
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.
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Name |
Last Modified |
Size |
Description |
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10-May-2008 |
1.8M |
jClamp Help file (jclamp32.chm); to view you may need to unblock in the security tab of the file properties |
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2-Mar-2010 |
1.0M |
FastLook! Help file (fastlook.chm); to view you may need to unblock in the security tab of the file properties |
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1-Jan-2008 |
5K |
install information |
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1-Jan-2008 |
1K |
Getting started and Labmaster DMA support |
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11-Sep-2011 |
31M |
New 32 bit (v 22.5.0) 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.
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Whenever |
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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23-Oct-2000 |
1K |
installed Axon driver files |
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Monday |
1K |
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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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
