Diffusion Nanopore Tools (master) History

History
master5873b18544cfb1e5663a10f…

Aug 7 2019

space
5873b18544cf
·deen on Aug 7 2019, 11:43.
fix
34e59e08e093
·deen on Aug 7 2019, 11:40.

Aug 6 2019

Added holoviews histogram plotting
72bad964fbed
·deen on Aug 6 2019, 12:11.

Jul 23 2019

x-axis log
b28ac35dd7e5
·deen on Jul 23 2019, 13:44.
Changed to check for string
1c201b3100e9
·deen on Jul 23 2019, 13:43.
Bugfix
b00190c1d228
·deen on Jul 23 2019, 13:32.
PSD plotting
81286bc0be01
·deen on Jul 23 2019, 13:18.

Jul 22 2019

bugfix
2f28106ada13
·deen on Jul 22 2019, 14:03.

Jul 15 2019

merge
c423162352c9
·deen on Jul 15 2019, 14:25.
Added relative delta for
958801e7521f
·deen on Jul 15 2019, 14:20.
Merge remote-tracking branch 'origin/Development-of-Analysis-GUI' into…
c92f4f7241ef
·deen on Jul 15 2019, 14:18.
Added check for small size
0f9eaf682370
·deen on Jul 15 2019, 14:17.

Jun 28 2019

Fixed the data loading, when no filename is specified.
944ee3a6c923
·Microtubulus <michael.graf> on Jun 28 2019, 10:08.

Jun 26 2019

I made a dirty fix to the IV function since it couldn't plot anything recorded…
926aeb25e4e0
·Microtubulus <michael.graf> on Jun 26 2019, 14:57.

Jun 17 2019

Implemented low-pass options for the whole trace display to speed things up
5db45a4bb67d
·Microtubulus <michael.graf> on Jun 17 2019, 14:34.
The plot that shows the event location within the whole trace is now scalable…
a59f7d7ae469
·Microtubulus <michael.graf> on Jun 17 2019, 13:35.

Jun 14 2019

fixed merge
9e38a6aefeb4
·Microtubulus <michael.graf> on Jun 14 2019, 16:28.
Merge branch 'Development-of-Analysis-GUI' of https://c4science.
e1fb93801dfb
·Microtubulus <michael.graf> on Jun 14 2019, 16:22.
Probably nearly finished
1b5083aba95d
·Microtubulus <michael.graf> on Jun 14 2019, 16:02.
Merge remote-tracking branch 'origin/Development-of-Analysis-GUI' into…
f283e2d1368a
·deen on Jun 14 2019, 15:53.
Analysis UI created
abcdb00c948e
·deen on Jun 14 2019, 15:52.
latest
992748feefcd
·Microtubulus <michael.graf> on Jun 14 2019, 11:19.
Merge branch 'master' into Development-of-Analysis-GUI
c60e9dea179e
·Microtubulus <michael.graf> on Jun 14 2019, 11:04.
Merge branch 'Development-of-Analysis-GUI' of https://c4science.
f905f230b58c
·Microtubulus <michael.graf> on Jun 14 2019, 09:24.

Jun 13 2019

Initial gui for analysis plotting
deb2d51778ee
·deen on Jun 13 2019, 17:25.
Event detector is now running on the selected files. All the files have a…
8574c2881649
·Microtubulus <michael.graf> on Jun 13 2019, 17:07.
Plot axes fixes. Other layout fixes.
bd4fb7c71584
·Microtubulus <michael.graf> on Jun 13 2019, 13:05.

Jun 12 2019

UI elements nearly finished. Plotting implemented. We will need to start to…
ea7575e2c37f
·Microtubulus <michael.graf> on Jun 12 2019, 17:38.
Moved sorting
62e380e32bf3
·deen on Jun 12 2019, 16:19.
Minor cosmetic changes
6b675b7de877
·deen on Jun 12 2019, 16:10.
Modified MakeIndividualIVs
e7f6ab17a17f
·deen on Jun 12 2019, 15:36.
Minor changes for plotting Bokeh in Jupyter
3b8380e96bc8
·deen on Jun 12 2019, 15:10.
sort Voltages
e377aa3ddf2c
·deen on Jun 12 2019, 14:58.
changed variable name
aeb2d8e44532
·deen on Jun 12 2019, 14:57.
EventDetectorUI: file input with duplicate check. Filter for .dat and .log.
c46c0a63865b
·Microtubulus <michael.graf> on Jun 12 2019, 14:48.
Jochem's CUSUM eventPlots fix + UI files
b22aa27f135a
·Microtubulus <michael.graf> on Jun 12 2019, 13:23.
Rudimentary template for the UI.
0c8ace2b9651
·Microtubulus <michael.graf> on Jun 12 2019, 11:36.
Merge remote-tracking branch 'origin/master'
34c4670c4cf8
·deen on Jun 12 2019, 11:11.
disabled nonfitted events by default
90792c965edb
·deen on Jun 12 2019, 11:11.
I made some changes to the mainplotgui. Mainly coloring, so that voltages…
850d6bde662b
·Microtubulus <michael.graf> on Jun 12 2019, 10:50.

Jun 11 2019

Added relative delta for CUSUM fitting
f0ed91619c81
·deen on Jun 11 2019, 14:07.
Added more printing for debugging
5708b27f21a2
·deen on Jun 11 2019, 11:36.
Plotting with Currentdrop
3b21f3fa5b7a
·deen on Jun 11 2019, 11:26.
Added line in EventPlots for plotting in Jupyter Notebook
0a68ff931638
·deen on Jun 11 2019, 09:40.
Changed type of CUSUM fitted events to 'CUSUM'
96d8adf9e29d
·deen on Jun 11 2019, 09:39.
changed eventLengthCUSUM assignation
3e86162b8769
·deen on Jun 11 2019, 09:36.
CUSUM needs at least 2 levels, not 3
0456ec9b066d
·deen on Jun 11 2019, 09:34.
Reorganized so event adding is more clear
6546e6f62eaa
·deen on Jun 11 2019, 09:32.
modified printing
1c05b36cc2be
·deen on Jun 11 2019, 09:27.
Minor changes in printing
46a6544c0236
·deen on Jun 11 2019, 09:17.
Added saving of currentDrop for impulse
34ac37040d47
·deen on Jun 11 2019, 09:07.
modified verboseLevel and added check for integer
5ffc7919fc39
·deen on Jun 11 2019, 09:02.
bugfix
c21afa3fedea
·deen on Jun 11 2019, 08:58.
modified check
f65c960d7cdc
·deen on Jun 11 2019, 08:57.
Modified coefficients
7dfe94a20c40
·deen on Jun 11 2019, 08:50.

Jun 7 2019

Modified detection of events, added option to fit traces with function and use…
ebb436057178
·deen on Jun 7 2019, 17:59.

May 9 2019

Modified plotting of PSD
a0bf6cc71c88
·deen on May 9 2019, 10:58.

Apr 29 2019

merge
7004a7213899
·thakur on Apr 29 2019, 10:39.

Apr 26 2019

amazing edits and voltage based plotting by Jochem
f3ada36a22f3
·deen / thakur on Apr 26 2019, 17:28.

Apr 8 2019

Am idiot, moved up definition of slope, also cleaned up slightly
dba5e49293d7
·deen on Apr 8 2019, 15:35.
Add return for pore size from MakeIndividualIVs
2b36f610b798
·deen on Apr 8 2019, 15:31.

Apr 3 2019

Removed some prints
551a42365c11
·deen on Apr 3 2019, 16:01.
Modified where it is absolute
9717699af7d3
·deen on Apr 3 2019, 15:52.
Set to Mac OS
4b0a6e8f0475
·deen on Apr 3 2019, 15:43.
Default set to ExpFit
24bfd3aa08bb
·deen on Apr 3 2019, 15:35.
Merge remote-tracking branch 'origin/master'
5b31c6b182e4
·deen on Apr 3 2019, 15:34.
Absolute value for slope
e315497d510a
·deen on Apr 3 2019, 15:34.

Apr 2 2019

Added lines for plotting on Mac OS X
58aa40228148
·thakur on Apr 2 2019, 17:37.
Fixed stubborn window by adding root withdraw in the end.
3b5805684ada
·thakur on Apr 2 2019, 14:38.

Apr 1 2019

Michaels code modified to import Jochems code. Gives translocation statistics…
a0aa7f4218f0
·thakur on Apr 1 2019, 19:01.

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.

Historymaster5873b18544cfb1e5663a10f…

Aug 7 2019

Aug 6 2019

Jul 23 2019

Jul 22 2019

Jul 15 2019

Jun 28 2019

Jun 26 2019

Jun 17 2019

Jun 14 2019

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Feb 28 2019

Feb 25 2019

Feb 19 2019

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Jan 27 2019

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Jan 14 2019

Dec 12 2018

Dec 11 2018

Dec 10 2018

Dec 6 2018

History
master5873b18544cfb1e5663a10f…