20170616_1505_phos1_O8.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_18.13.02
{"dclab version": [0, 60, 3], "kwargs": {"features": ["area_cvx", "area_msd", "circ", "contour", "fl1_area", "fl1_dist", "fl1_max", "fl1_npeaks", "fl1_pos", "fl1_width", "fl2_area", "fl2_dist", "fl2_max", "fl2_npeaks", "fl2_pos", "fl2_width", "frame", "image", "inert_ratio_cvx", "inert_ratio_raw", "mask", "nevents", "pos_x", "pos_y", "size_x", "size_y", "trace"], "filtered": true, "logs": false, "tables": false, "basins": false, "meta_prefix": "src_", "skip_checks": false}}dclab-tdms2rtdc
{"ancillary features": [
"mask"
],
"files": [
{
"index": 1,
"md5-5M": "69a5a0564b829e5e94527f9d0a79e87d",
"name": "M1_20170616_1505_dsRNA_O8_col.tdms"
}
],
"libraries": {
"dclab": "0.60.3",
"h5py": "3.11.0",
"imageio": "2.34.2",
"nptdms": "1.8.0",
"numpy": "1.26.4"
},
"python": {
"build": "tags/v3.11.1:a7a450f, Dec 6 2022 19:58:39",
"implementation": "CPython",
"version": "3.11.1"
},
"system": {
"info": "Windows-10-10.0.19045-SP0",
"machine": "AMD64",
"name": "Windows",
"release": "10",
"version": "10.0.19045"
},
"utc": {
"date": "2024-07-10",
"time": "16:13:24"
}
}
FG_Config.mcf
[Kamerasektion]ConfigFileVersion=2.0;
Hersteller='Generic-CameraLink';
Typ='vas';
HapName='C:/Lib/SiliconSoftware/Runtime5.4.1/Hardware Applets/mE4VD4-CL/PR_BG_subtr_141204_ext_trig_noerode.hap';
Version='1.5';
LoadAppletId=0;
AktivePort=0;
[ID0]
FG_WIDTH=256;
FG_HEIGHT=96;
FG_TIMEOUT=1000000;
FG_FORMAT=3;
FG_PORT=0;
FG_GLOBAL_ACCESS=0;
Device1_Process0_UpperBits_BitOffset=4;
Device1_Process0_module9_SyncMode=0;
Device1_Process0_Camera_DvalMode=1;
Device1_Process0_Camera_FullMode=0;
Device1_Process0_DMA_PixelsPerLine=0;
Device1_Process0_DMA_BytesPerLine=0;
Device1_Process0_LowerBits_BitOffset=0;
Device1_Process0_Buffer1_XOffset=0;
Device1_Process0_Buffer1_XLength=256;
Device1_Process0_Buffer1_YOffset=0;
Device1_Process0_Buffer1_YLength=96;
Device1_Process0_Buffer1_FillLevel=75;
Device1_Process0_Buffer1_Overflow=0;
Device1_Process0_Buffer1_InfiniteSource=0;
Device1_Process0_Buffer0_XOffset=0;
Device1_Process0_Buffer0_XLength=256;
Device1_Process0_Buffer0_YOffset=0;
Device1_Process0_Buffer0_YLength=96;
Device1_Process0_Buffer0_FillLevel=75;
Device1_Process0_Buffer0_Overflow=0;
Device1_Process0_Buffer0_InfiniteSource=0;
Device1_Process0_module12_BufferWidth=400;
Device1_Process0_module12_BufferHeight=96;
Device1_Process0_module12_XOffset=0;
Device1_Process0_module12_XLength=256;
Device1_Process0_module12_YOffset=0;
Device1_Process0_module12_YLength=96;
Device1_Process0_module12_UpdateROI=1;
Device1_Process0_module12_CoefficientFile 0='coefficients_0.tif';
Device1_Process0_module12_LoadCoefficients=1;
Device1_Process0_module13_SyncMode=0;
Device1_Process0_module16_from=18446744073709551360;
Device1_Process0_module16_to=18446744073709551610;
Device1_Process0_module17_Value=0;
Device1_Process0_module20_PixelsPerLine=0;
Device1_Process0_module20_BytesPerLine=0;
Device1_Process0_module21_Number=0;
Device1_Process0_module26_ScaleFactorMaxBits=8;
Device1_Process0_module26_ScaleFactor=255;
Device1_Process0_module28_TriggerMode=2;
Device1_Process0_module28_ExsyncEnable=1;
Device1_Process0_module28_FlashEnable=1;
Device1_Process0_module28_SoftwareTrgPulse=1;
Device1_Process0_module28_SoftwareTrgIsBusy=0;
Device1_Process0_module28_ImgTrgInSource=0;
Device1_Process0_module28_ImgTrgInPolarity=0;
Device1_Process0_module28_ImgTrgDownscale=1;
Device1_Process0_module28_Accuracy=2;
Device1_Process0_module28_ExsyncFramesPerSec=2000;
Device1_Process0_module28_ExsyncExposure=20;
Device1_Process0_module28_ExsyncDelay=0;
Device1_Process0_module28_ExsyncPolarity=0;
Device1_Process0_module28_FlashDelay=0;
Device1_Process0_module28_SoftwareTrgDeadTime=10000;
Device1_Process0_module28_FlashPolarity=1;
Device1_Process0_module28_CC1output=0;
Device1_Process0_module28_CC2output=8;
Device1_Process0_module28_CC3output=8;
Device1_Process0_module28_CC4output=8;
Device1_Process0_module28_DebouncingMaxTime=65.52;
Device1_Process0_module28_DebouncingTime=0.112;
[ID1]
FG_WIDTH=256;
FG_HEIGHT=96;
FG_TIMEOUT=1000000;
FG_FORMAT=3;
M1_camera.ini
[Framerate]Shutter Time = 20
Frame Rate = 2000
Tap Mode = 8x8 Bit
Tap Code = 6
[ROI]
x-pos = 504
y-pos = 472
width = 256
height = 96
M1_log.ini
[EVENT LOG] fRT-DC V1.06170206Reset global variables..
Circular Buffer Size is: 1000000
Ambient Temperature [C] = 24.8768
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 2.15691e+008
Use analog input: pci/ai4,pci/ai5
Samplerate per channel: 500000
Buffersize in byte: 1000000
Rising Edge, Continuous Sampling
N_callback: 125
Callbacks per frame: 2
Callback registered
Configure tasks for online measurement..
Timing: start directly
Freq: 2000
Duty cycle: 0.5
Reset global variables: i0, i1, samplesThisRun
Start the Fragegrabber ..
Start the NI-DAQ Card..
Stop after time: 0
Stop after nr. of cells: 10000
Ran for 50 frames Cell Events: 0 mean_circ: 0.937214
Ran for 550 frames Cell Events: 12 mean_circ: 0.953654
Ran for 1050 frames Cell Events: 18 mean_circ: 0.94193
Ran for 1550 frames Cell Events: 29 mean_circ: 0.945181
Ran for 2550 frames Cell Events: 52 mean_circ: 0.941295
Ran for 3050 frames Cell Events: 60 mean_circ: 0.943255
Ran for 3550 frames Cell Events: 73 mean_circ: 0.940016
Ran for 4050 frames Cell Events: 81 mean_circ: 0.939333
Ran for 4550 frames Cell Events: 92 mean_circ: 0.93897
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Ran for 6550 frames Cell Events: 133 mean_circ: 0.94029
Ran for 7050 frames Cell Events: 142 mean_circ: 0.94127
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Ran for 8550 frames Cell Events: 160 mean_circ: 0.940991
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Ran for 20050 frames Cell Events: 355 mean_circ: 0.938631
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Ran for 21550 frames Cell Events: 387 mean_circ: 0.937798
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Ran for 35550 frames Cell Events: 627 mean_circ: 0.93949
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Ran for 72050 frames Cell Events: 1262 mean_circ: 0.940728
Ran for 72550 frames Cell Events: 1271 mean_circ: 0.940825
Ran for 73050 frames Cell Events: 1279 mean_circ: 0.940864
Ran for 73550 frames Cell Events: 1288 mean_circ: 0.940896
Ran for 74050 frames Cell Events: 1294 mean_circ: 0.940962
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Ran for 76550 frames Cell Events: 1325 mean_circ: 0.941129
Ran for 77050 frames Cell Events: 1334 mean_circ: 0.941177
Ran for 77550 frames Cell Events: 1343 mean_circ: 0.941226
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Ran for 81050 frames Cell Events: 1395 mean_circ: 0.940876
Ran for 82050 frames Cell Events: 1415 mean_circ: 0.940991
Ran for 82550 frames Cell Events: 1424 mean_circ: 0.94107
Ran for 83050 frames Cell Events: 1437 mean_circ: 0.941185
Ran for 83550 frames Cell Events: 1443 mean_circ: 0.941115
Ran for 84050 frames Cell Events: 1448 mean_circ: 0.941107
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Ran for 85550 frames Cell Events: 1487 mean_circ: 0.941464
Ran for 87050 frames Cell Events: 1537 mean_circ: 0.941519
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Ran for 92050 frames Cell Events: 1620 mean_circ: 0.941403
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Ran for 93550 frames Cell Events: 1648 mean_circ: 0.941365
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Ran for 96550 frames Cell Events: 1714 mean_circ: 0.941455
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Ran for 100050 frames Cell Events: 1785 mean_circ: 0.941387
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Ran for 101050 frames Cell Events: 1804 mean_circ: 0.941475
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Ran for 102550 frames Cell Events: 1827 mean_circ: 0.941467
Ran for 103050 frames Cell Events: 1837 mean_circ: 0.941449
Ran for 103550 frames Cell Events: 1847 mean_circ: 0.941321
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Ran for 166050 frames Cell Events: 3047 mean_circ: 0.941514
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Ran for 384050 frames Cell Events: 7512 mean_circ: 0.94159
Ran for 384550 frames Cell Events: 7519 mean_circ: 0.941595
Ran for 385050 frames Cell Events: 7532 mean_circ: 0.941603
Ran for 385550 frames Cell Events: 7543 mean_circ: 0.941602
Ran for 386050 frames Cell Events: 7555 mean_circ: 0.941613
Ran for 386550 frames Cell Events: 7561 mean_circ: 0.941619
Ran for 387050 frames Cell Events: 7574 mean_circ: 0.941631
Ran for 387550 frames Cell Events: 7587 mean_circ: 0.941629
Ran for 388050 frames Cell Events: 7595 mean_circ: 0.941627
Ran for 388550 frames Cell Events: 7601 mean_circ: 0.941624
Ran for 389050 frames Cell Events: 7620 mean_circ: 0.941595
Ran for 389550 frames Cell Events: 7636 mean_circ: 0.941612
Ran for 390050 frames Cell Events: 7647 mean_circ: 0.941538
Ran for 390550 frames Cell Events: 7654 mean_circ: 0.941535
Ran for 391050 frames Cell Events: 7665 mean_circ: 0.941509
Ran for 391550 frames Cell Events: 7676 mean_circ: 0.941507
Ran for 392050 frames Cell Events: 7681 mean_circ: 0.941498
Ran for 392550 frames Cell Events: 7687 mean_circ: 0.94151
Ran for 393050 frames Cell Events: 7694 mean_circ: 0.941518
Ran for 394550 frames Cell Events: 7722 mean_circ: 0.9415
Ran for 395050 frames Cell Events: 7732 mean_circ: 0.941519
Ran for 395550 frames Cell Events: 7744 mean_circ: 0.941528
Ran for 396050 frames Cell Events: 7759 mean_circ: 0.941491
Ran for 396550 frames Cell Events: 7766 mean_circ: 0.941512
Ran for 397050 frames Cell Events: 7773 mean_circ: 0.94153
Ran for 397550 frames Cell Events: 7789 mean_circ: 0.941507
Ran for 398050 frames Cell Events: 7802 mean_circ: 0.941529
Ran for 399050 frames Cell Events: 7818 mean_circ: 0.941526
Ran for 400050 frames Cell Events: 7834 mean_circ: 0.941529
Ran for 401050 frames Cell Events: 7851 mean_circ: 0.941482
Ran for 401550 frames Cell Events: 7857 mean_circ: 0.941497
Ran for 402050 frames Cell Events: 7872 mean_circ: 0.941474
Ran for 402550 frames Cell Events: 7883 mean_circ: 0.941478
Ran for 403050 frames Cell Events: 7891 mean_circ: 0.94148
Ran for 403550 frames Cell Events: 7900 mean_circ: 0.941467
Ran for 404050 frames Cell Events: 7922 mean_circ: 0.941463
Ran for 405050 frames Cell Events: 7944 mean_circ: 0.941463
Ran for 405550 frames Cell Events: 7956 mean_circ: 0.941465
Ran for 406050 frames Cell Events: 7972 mean_circ: 0.941439
Ran for 406550 frames Cell Events: 7979 mean_circ: 0.941413
Ran for 407050 frames Cell Events: 7986 mean_circ: 0.941417
Ran for 407550 frames Cell Events: 8003 mean_circ: 0.941442
Ran for 408050 frames Cell Events: 8014 mean_circ: 0.941444
Ran for 408550 frames Cell Events: 8023 mean_circ: 0.941465
Ran for 409050 frames Cell Events: 8033 mean_circ: 0.941479
Ran for 409550 frames Cell Events: 8047 mean_circ: 0.941483
Ran for 412550 frames Cell Events: 8130 mean_circ: 0.94146
Ran for 413050 frames Cell Events: 8135 mean_circ: 0.941472
Ran for 413550 frames Cell Events: 8144 mean_circ: 0.941466
Ran for 414050 frames Cell Events: 8149 mean_circ: 0.941462
Ran for 414550 frames Cell Events: 8156 mean_circ: 0.941468
Ran for 415050 frames Cell Events: 8177 mean_circ: 0.941481
Ran for 415550 frames Cell Events: 8187 mean_circ: 0.941475
Ran for 416050 frames Cell Events: 8199 mean_circ: 0.941476
Ran for 416550 frames Cell Events: 8208 mean_circ: 0.941494
Ran for 417050 frames Cell Events: 8220 mean_circ: 0.941504
Ran for 417550 frames Cell Events: 8229 mean_circ: 0.941506
Ran for 418050 frames Cell Events: 8239 mean_circ: 0.941488
Ran for 418550 frames Cell Events: 8250 mean_circ: 0.941496
Ran for 419050 frames Cell Events: 8266 mean_circ: 0.941483
Ran for 419550 frames Cell Events: 8282 mean_circ: 0.941469
Ran for 420050 frames Cell Events: 8294 mean_circ: 0.941494
Ran for 420550 frames Cell Events: 8310 mean_circ: 0.941494
Ran for 421050 frames Cell Events: 8321 mean_circ: 0.9415
Ran for 421550 frames Cell Events: 8333 mean_circ: 0.941483
Ran for 422050 frames Cell Events: 8346 mean_circ: 0.941504
Ran for 422550 frames Cell Events: 8355 mean_circ: 0.941516
Ran for 423050 frames Cell Events: 8363 mean_circ: 0.941522
Ran for 423550 frames Cell Events: 8380 mean_circ: 0.941517
Ran for 424050 frames Cell Events: 8389 mean_circ: 0.94153
Ran for 424550 frames Cell Events: 8404 mean_circ: 0.941515
Ran for 425050 frames Cell Events: 8415 mean_circ: 0.941507
Ran for 425550 frames Cell Events: 8432 mean_circ: 0.941521
Ran for 426050 frames Cell Events: 8444 mean_circ: 0.94152
Ran for 427050 frames Cell Events: 8459 mean_circ: 0.941501
Ran for 427550 frames Cell Events: 8467 mean_circ: 0.941501
Ran for 428550 frames Cell Events: 8483 mean_circ: 0.941508
Ran for 429050 frames Cell Events: 8491 mean_circ: 0.941512
Ran for 430050 frames Cell Events: 8511 mean_circ: 0.941475
Ran for 431550 frames Cell Events: 8534 mean_circ: 0.941475
Ran for 432050 frames Cell Events: 8542 mean_circ: 0.941474
Ran for 433050 frames Cell Events: 8571 mean_circ: 0.941445
Ran for 434050 frames Cell Events: 8597 mean_circ: 0.941421
End this measurment..
Stopping time: 2.15909e+008
****************************************
Measurement finished
Mean Circularitiy: 0.941417
Mean Area: 597.614
Mean FL-1 intensity: 2691.45
Mean FL-2 intensity: 3261.56
Mean FL-3 intensity: 0
frames processed: 432262
Total Time: 217313ms
Number of Runs (new bg img) 0
Frames collected: 434475
Skipped frames: 18019
Rescued Frames: 1957309
Samples DAQ: 108618674
Samples written: 217237286
Samples per Channel: 108618643
FPS: 1999.31
Samples per second: 499826
Expected samples/s: 500000
Events: 8604
Events per second: 39.5927
jumped back (PMT): 7606
#Frames read, frequency
# 0 frames :573110
# 1 frames :269830
# 2 frames :7709
# 3 frames :3411
# 4 frames :1367
# 5 frames :1152
# 6 frames :1217
# 7 frames :2631
# 8 frames :1274
# 9 frames :868
# 10 frames :2008
# 11 frames :1193
# 12 frames :938
# 13 frames :493
# 14 frames :283
# 15 frames :242
# 16 frames :217
# 17 frames :221
# 18 frames :187
# 19 frames :138
# 20 frames :112
# 21 frames :80
# 22 frames :57
# 23 frames :34
# 24 frames :30
# 25 frames :27
# 26 frames :17
# 27 frames :9
# 28 frames :14
# 29 frames :8
# 30 frames :10
# 31 frames :4
# 32 frames :5
# 33 frames :6
# 34 frames :5
# 35 frames :2
# 36 frames :4
# 37 frames :1
# 39 frames :3
# 42 frames :1
# 43 frames :1
# 44 frames :2
# 64 frames :1
# 74 frames :1
M1_para.ini
[General]Measurement Number = 1
Flow Rate [ul/s] = 0.04
Region = "Channel"
Channel width = 20
Current LED = 100
[Image]
Setup = Cell_Flow_2 + Fluor
Bin Ops = 5
Blur = 0
Trig Thresh = 50
t1 = -256
t2 = -6
Pix Size = 0.34
Cell Min = 6
Cell Max = 50
Thresh = 6
Diff_Method = 1
Margin = 0
#[FLUOR]
#fRT-DC V1.06170206
#Samplerate = 500000
#Bitdepthraw = 16
#Format = int16
#ADCmin = -1
#ADCmax = 1
#FL-Channels = 2
Laser Power 488 [mW] = 10
Laser Power 561 [mW] = 35
Laser Power 640 [mW] = 0
Ambient Temp. [C] = 24.8768
parameters.txt
#fRT-DC Configuration file# You may change the values here before a measurement.
debug 0
hull 1
x_size 256
y_size 96
x_pos 504
y_pos 464
pix_size 0.34
cell_min 6
cell_max_x 50
cell_max_y 50
cell_aspect_min 0
cell_aspect_max 10
threshold1 -256
threshold2 -6
trig_threshold 50
MARGIN 0
write_videos 0
write_phot_det 0
show_video 1
write_events 1
fps 2000
samplesperframe 300
Vmin -1
Vmax 1
invertCh1 1
invertCh2 1
invertCh3 1
invertChX 1
samplerate 500000
bg_img 100
channel_width 20
current_led 100
pulse_led 2
binary_ops 5
blur 0
median_pmt 5
software_binops 1
flowctrl 0
flowwait 60
numberofchannels 2
firstchannel 4
secondchannel 5
thirdchannel -6
laser488 10
laser561 35
laser640 0
peakcountthreshold 1000
peakDipRatio 0.8
offsetFL1 0
offsetFL2 0
offsetFL3 0
rollingAverage 100
stopCell 10000
stopTime 0
minFL1 400
minFL2 668
minFL3 -32768
maxFL1 32767
maxFL2 32767
maxFL3 32767
setTimingAutomatic 1
plotWidth 0
getBrightness 0
intellPeak 0
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Additional Information
Field | Value |
---|---|
license | Creative Commons Public Domain Dedication |
created | 3 months ago |
etag | f63eb99f411e6313e5921045ccb753a5 |
format | RT-FDC |
id | b753fc05-5113-483b-866a-757034c20660 |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | 06b41238-d501-47ab-aac5-f5edf590d9c3 |
position | 2 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-5d2846fc-f12d-45de-96d1-e1eea06e16c7/resource/b75/3fc/05-5113-483b-866a-757034c20660 |
sha256 | 498a0cf9059f5c5ad2dcd2f89cdb7f6ed531b517015a49a8b9ae9d57b7393dce |
size | 148.7 MiB |
dc:experiment:date | 2017-06-16 |
dc:experiment:event count | 8,603 |
dc:experiment:run identifier | None-15f2 |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170616_1505_dsRNA_O8_col |
dc:experiment:time | 15:05:45 |
dc:fluorescence:bit depth | 16 |
dc:fluorescence:channel 1 name | FL1 |
dc:fluorescence:channel 2 name | FL2 |
dc:fluorescence:channel count | 2 |
dc:fluorescence:channels installed | 3 |
dc:fluorescence:laser 1 lambda | 488 |
dc:fluorescence:laser 1 power | 10 |
dc:fluorescence:laser 2 lambda | 561 |
dc:fluorescence:laser 2 power | 35 |
dc:fluorescence:laser 3 lambda | 640 |
dc:fluorescence:laser 3 power | 0 |
dc:fluorescence:laser count | 2 |
dc:fluorescence:lasers installed | 3 |
dc:fluorescence:sample rate | 500,000 |
dc:fluorescence:samples per event | 300 |
dc:fluorescence:signal max | 1 |
dc:fluorescence:signal min | -1 |
dc:fluorescence:trace median | 5 |
dc:imaging:flash device | LED (undefined) |
dc:imaging:flash duration | 2 |
dc:imaging:frame rate | 2,000 |
dc:imaging:pixel size | 0.34 |
dc:imaging:roi position x | 504 |
dc:imaging:roi position y | 472 |
dc:imaging:roi size x | 256 |
dc:imaging:roi size y | 96 |
dc:online contour:bin area min | 50 |
dc:online contour:bin kernel | 5 |
dc:online contour:bin threshold | 6 |
dc:online contour:image blur | 0 |
dc:online contour:no absdiff | True |
dc:setup:channel width | 20 |
dc:setup:chip region | channel |
dc:setup:flow rate | 0.04 |
dc:setup:module composition | Cell_Flow_2, Fluor |
dc:setup:software version | fRT-DC V1.06170206 | dclab 0.60.3 |
sp:cells:cell type | KC167 |
sp:cells:live | True |
sp:cells:organism | Drosophila melanogaster |
sp:chip:channel width | 20 |
sp:experiment:buffer osmolality | 325 |
sp:experiment:buffer ph | 6.8 |
sp:experiment:concentration | 5 |
sp:identifiers:labels | GFP tdTomato |
sp:identifiers:tags | NLS-GFP |