Diffusion Nanopore Tools (master) History

History
master1a44d300663d90d0c6901a4…

Mar 22 2019

Changed classes such that Currentdrop is always mean
1a44d300663d
·deen on Mar 22 2019, 17:33.
import Range1D
47a96ece775c
·deen on Mar 22 2019, 16:54.
Merge branch 'master' of ssh://c4science.ch/source/Nanopore-tools
94b4da545ead
·deen on Mar 22 2019, 16:48.
xlim and ylim on figure
bac909099f2c
·deen on Mar 22 2019, 16:48.
Removed import EventPlots, was unused
524548c68787
·deen on Mar 22 2019, 16:02.
added limits to the function
60231057e4c9
·deen on Mar 22 2019, 15:35.

Mar 13 2019

Merge remote-tracking branch 'origin/master'
c15fa882f3b4
·Axopatch on Mar 13 2019, 18:20.
Fixed capital letter
f965f55c4d5c
·Axopatch on Mar 13 2019, 18:19.
bugfix
b312fafccb7f
·deen on Mar 13 2019, 17:54.
added GetEventTypes
3d74c7680482
·Axopatch on Mar 13 2019, 17:41.
Open multiple files
930e44a351de
·Axopatch on Mar 13 2019, 17:22.
Merge remote-tracking branch 'origin/master'
c4a4ce134a66
·Axopatch on Mar 13 2019, 13:29.

Feb 28 2019

Added Drndic pore estimation.
c365cbf76e0b
·Microtubulus <michael.graf> on Feb 28 2019, 16:40.

Feb 25 2019

Slight modification
819291dbdcac
·Axopatch on Feb 25 2019, 12:46.

Feb 19 2019

Added WaveletDenoising function based on DOI: 10.1021/acs.nanolett.8b0438
23bbd39cbe27
·schneuwly on Feb 19 2019, 11:14.

Jan 28 2019

Merge remote-tracking branch 'origin/master'
32cc2a9272f4
·Axopatch on Jan 28 2019, 16:09.
for PSDs
d37dbe352a43
·Axopatch on Jan 28 2019, 16:08.

Jan 27 2019

more docstrings
321317e9b140
·schneuwly on Jan 27 2019, 22:36.

Jan 24 2019

added docstrings to document some functions
978ab3ff6e83
·schneuwly on Jan 24 2019, 00:20.

Jan 16 2019

Simplified version of GTau plot using Bokeh
475f5761a285
·deen on Jan 16 2019, 10:35.

Jan 14 2019

Added PSF plotting function
ac035c18794d
·deen on Jan 14 2019, 17:17.

Dec 12 2018

Fix plotting of data. Use Math.abs (capital letter for javascript!). Also shows…
4992f8975ef8
·deen on Dec 12 2018, 20:37.
absolute value of tick
2ba93daf2eed
·Axopatch on Dec 12 2018, 15:46.
Fixed deprecated function in pandas.
c710ce839009
·Axopatch on Dec 12 2018, 13:54.

Dec 11 2018

added option to fit IV with exponential
1fbb9b0533a3
·Axopatch on Dec 11 2018, 14:50.
Added function GetParameters() to see default parameters Changed…
c6b661d2d480
·Axopatch on Dec 11 2018, 10:08.

Dec 10 2018

Merge remote-tracking branch 'origin/master'
0e9cb3c37ced
·Axopatch on Dec 10 2018, 16:34.
Clear matplotGui
0b82d48a1d63
·Axopatch on Dec 10 2018, 16:34.
Import Functions in LoadData
9530fc72ff2c
·deen on Dec 10 2018, 09:50.

Dec 6 2018

added back plotgui.py
3e9d528dfa0a
·deen on Dec 6 2018, 14:08.

Dec 5 2018

Added LoadVariable function
e916c0949892
·deen on Dec 5 2018, 19:09.
Removed cutting of FullTrace
4e1051e88fcb
·deen on Dec 5 2018, 18:47.
Implemented plotting in Bokeh
42aa378d194c
·deen on Dec 5 2018, 15:00.
Added Plotting function for simple trace plot
ce6047fe7825
·deen on Dec 5 2018, 13:14.
Optimized imports, restructured code a bit
f6493234bb87
·deen on Dec 5 2018, 10:59.
Moved Loading data functions to new script, for easier access. Moved unused…
f6dac0696a44
·deen on Dec 5 2018, 10:47.
Cleaning up of git
c174859d5b62
·deen on Dec 5 2018, 10:28.
Added check for length to not show error message if missing data
d20e559ae01d
·deen on Dec 5 2018, 10:14.

Dec 4 2018

Merge remote-tracking branch 'origin/master'
acffb6d8ec58
·deen on Dec 4 2018, 16:26.
changed check to not 0
ecfb78678b73
·deen on Dec 4 2018, 16:25.

Nov 29 2018

Merge branch 'master' of https://c4science.ch/diffusion/5484/nanopore-tools
65e4816bf5ea
·Microtubulus <michael.graf> on Nov 29 2018, 15:32.
Merge branch 'master' of https://c4science.ch/diffusion/5484/nanopore-tools
fbf8f3beb1e9
·Microtubulus <michael.graf> on Nov 29 2018, 15:31.
Added log scale function
2bb51f0f8cee
·thakur / Axopatch on Nov 29 2018, 11:51.

Nov 28 2018

merge
2ef35a200eac
·thakur on Nov 28 2018, 11:22.

Nov 23 2018

-updated for csv files -semilog graphs
ac1107061311
·thakur on Nov 23 2018, 11:25.
Changed opening of abf files, current units appear to be in pA.
06756ab5ac7e
·deen on Nov 23 2018, 09:21.

Nov 21 2018

bugfix for using default extension if none is specified. Added string with…
4debbda11487
·deen on Nov 21 2018, 13:20.

Nov 20 2018

dated 20/11/2018
cf08f7c66c2b
·thakur on Nov 20 2018, 22:07.

Nov 6 2018

minor bug
4c63018c6ea0
·deen on Nov 6 2018, 15:42.
Merge remote-tracking branch 'origin/master'
d8f7aeba5740
·deen on Nov 6 2018, 15:39.
Added verbose options to most load functions and event detection and IV making.
72d130d353ae
·deen on Nov 6 2018, 15:37.

Oct 29 2018

Corrected typo for lenght --> length
1deb5d5da264
·thakur / Axopatch on Oct 29 2018, 18:20.

Oct 23 2018

Bugfix in CUSUM fitting, index -1. Added time for CUSUM fitting. Fix for…
1b48a3ac0be4
·deen on Oct 23 2018, 16:13.
fix
dfe0ecb79611
·deen on Oct 23 2018, 14:38.
Changed fit types. Added Standard error key (SE) that correctly captures the…
d4e385f6328a
·deen on Oct 23 2018, 14:37.

Sep 26 2018

Changed to Rough
aaef6f69371d
·deen on Sep 26 2018, 14:45.
Added voltage in plot
52897e16647e
·deen on Sep 26 2018, 14:43.
Misspelling......
b8b0a10ea649
·deen on Sep 26 2018, 14:27.
Bugfix, incorrectly estimating baseline
0304f8d4c759
·deen on Sep 26 2018, 14:24.
Added titlte
3661c2d7932e
·deen on Sep 26 2018, 14:02.
Minor bugfix for plotting if not fitted
62be1090664b
·deen on Sep 26 2018, 14:00.
Bugfix for opening data
d7388e3b03c0
·deen on Sep 26 2018, 13:09.
fixed plotting of events when clicked. Added option to show original trace with…
23cadb544365
·deen on Sep 26 2018, 11:35.
Changed name from Nanoporeplots to EventPlots. Added interactive plot, Split…
a8388ba67ded
·deen on Sep 26 2018, 09:42.

Sep 25 2018

Added interactive G-tau plot. Shows only CUSUM fitted events for now (with…
933b5123747b
·deen on Sep 25 2018, 17:19.
Removed plotting from nanoporeclases. Added CUSUM variables to nanoporeclasses.
1f6786480d9e
·deen on Sep 25 2018, 16:40.

Sep 21 2018

Changed saving of data
bde0ca0d1dab
·deen on Sep 21 2018, 16:09.
no message
c792e13c699c
·Microtubulus <michael.graf> on Sep 21 2018, 13:13.
Implement CUSUM in event detection
2a8396bb4a6d
·deen on Sep 21 2018, 13:02.
Fixed CUSUM function
38d9c4366802
·deen on Sep 21 2018, 12:53.
move to directory
c3550ed6e891
·deen on Sep 21 2018, 07:48.
Revert "Change directory for making IV"
b3c62d386c00
·deen on Sep 21 2018, 07:46.
Merge remote-tracking branch 'origin/master'
3b3cb8f58ddd
·deen on Sep 21 2018, 07:39.
Change directory for making IV
2e1d4a0e578d
·deen on Sep 21 2018, 07:39.

Sep 20 2018

Merge remote-tracking branch 'origin/master'
30bc3a694243
·deen on Sep 20 2018, 11:28.
added delay variable
5f63cce9e6e9
·deen on Sep 20 2018, 11:28.

Sep 12 2018

Merge remote-tracking branch 'origin/master'
29927513e285
·deen on Sep 12 2018, 15:16.
make type of coefficient all
451b6c50e0b3
·deen on Sep 12 2018, 15:16.
Added option for lowpass
2a248ed4f722
·branch: CUSUM
·deen on Sep 12 2018, 15:07.
Implemented CUSUM
d88f1af316db
·deen on Sep 12 2018, 11:20.

Sep 11 2018

Added Capacitance Measurement Code: CapacitanceCalc.py
abf170dbe284
·Microtubulus <michael.graf> on Sep 11 2018, 17:53.

Sep 10 2018

Merge branch 'master' of https://c4science.ch/diffusion/5484/nanopore-tools
bbda3fc18b16
·Microtubulus <michael.graf> on Sep 10 2018, 16:39.
osmotixvsconcdifference
e6a5c296a5e1
·Microtubulus <michael.graf> on Sep 10 2018, 16:39.
Redox
06472a371340
·Microtubulus <michael.graf> on Sep 10 2018, 16:34.
Added option to save as CSV
0f999a824045
·deen on Sep 10 2018, 10:04.

Sep 7 2018

Check if directory for saving exists, otherwise make it
6175240322bf
·deen on Sep 7 2018, 13:37.
variable changes
d9ad6bb5c745
·deen on Sep 7 2018, 13:31.
Forgot to remove append
142711bf3427
·Jochem on Sep 7 2018, 13:30.
bug needs to be string
53eba428216e
·Jochem on Sep 7 2018, 13:28.
Assertion bug, changed layout
c586f9ef2da1
·Jochem on Sep 7 2018, 13:27.
Added option to force run and option to cut out the saved chunks before…
531c52b5c6e1
·Jochem on Sep 7 2018, 13:20.
Estimate the impulse response length of the filter to improve calculation speed
8c5513d52bcc
·Jochem on Sep 7 2018, 11:28.
Merge remote-tracking branch 'origin/master'
401a6116ee17
·Chimera_2nd on Sep 7 2018, 10:52.
Can load Chimera files as well now
671b9a4959da
·Chimera_2nd on Sep 7 2018, 10:51.

Sep 6 2018

Added option to skip fitting if the batchevents has already been done with the…
2fb6a1c505c2
·Jochem on Sep 6 2018, 13:42.
Changed filename of EventDetection. Added possibility to directly run…
84359bf20bde
·Jochem on Sep 6 2018, 13:15.

Sep 5 2018

Merge remote-tracking branch 'origin/master'
44d1d2696158
·Jochem on Sep 5 2018, 17:29.
Added equation for calculating size of nanocapillary and shrunken…
4dc9fe63cc83
·Jochem on Sep 5 2018, 17:25.

Aug 29 2018

updated 2D plotting script with help of Jochem
632f91e3cc93
·thakur on Aug 29 2018, 18:01.
Fix for Mukesh
ee0c6e9047ce
·Jochem on Aug 29 2018, 17:27.

Historymaster1a44d300663d90d0c6901a4…

Mar 22 2019

Mar 13 2019

Feb 28 2019

Feb 25 2019

Feb 19 2019

Jan 28 2019

Jan 27 2019

Jan 24 2019

Jan 16 2019

Jan 14 2019

Dec 12 2018

Dec 11 2018

Dec 10 2018

Dec 6 2018

Dec 5 2018

Dec 4 2018

Nov 29 2018

Nov 28 2018

Nov 23 2018

Nov 21 2018

Nov 20 2018

Nov 6 2018

Oct 29 2018

Oct 23 2018

Sep 26 2018

Sep 25 2018

Sep 21 2018

Sep 20 2018

Sep 12 2018

Sep 11 2018

Sep 10 2018

Sep 7 2018

Sep 6 2018

Sep 5 2018

Aug 29 2018

History
master1a44d300663d90d0c6901a4…