DOI: 10.5061/dryad.pc866t235
title: BARCODE: high throughput screening and analysis of soft active materials

description: Active, responsive, non-equilibrium materials–at the forefront of
 materials engineering–offer dynamical restructuring, mobility, and other
 complex life-like properties. Yet, this enhanced functionality comes with
 significant amplification of the size and complexity of the datasets
 needed to characterize their properties, thereby challenging conventional
 approaches to analysis. To meet this need, we developed BARCODE:
 Biomaterial Activity Readouts to Categorize, Optimize, Design, and
 Engineer, an open-access software that automates high-throughput screening
 of microscopy video data to enable non-equilibrium material optimization
 and discovery. BARCODE produces a unique fingerprint or ‘barcode’ of
 performance metrics that visually and quantitatively encodes dynamic
 material properties with minimal file size. Using three complementary
 material-agnostic analysis branches, BARCODE significantly reduces data
 dimensionality and size, while providing rich, multiparametric outputs and
 rapid, tractable characterization of activity and structure. Here, we
 provide a series of datasets of cytoskeleton networks and cell monolayers
 that demonstrate BARCODE’s abilities to accelerate and streamline
 screening and analysis, reveal unexpected correlations and emergence,
 while showcasing BARCODE's ability to enable broad non-expert data
 access, comparison, and sharing. BARCODE software is available
 at https://github.com/softmatterdb/barcode.
description: # BARCODE: high throughput screening and analysis of soft active materials
 Dryad DOI: https://doi.org/10.5061/dryad.pc866t235 This dataset contains
 the quantitative data presented in the main text figures for “BARCODE:
 Biomaterial Activity Readouts to Categorize, Optimize, Design and Engineer
 for high throughput screening of dynamic soft materials”, by authors
 Qiaopeng Chen, Aditya Sriram, Ayan Das, Katarina Matic, Maya Hendija,
 Keegan Tonry, Jennifer L. Ross, Moumita Das, Ryan J. McGorty, Rae M.
 Robertson-Anderson, and Megan T. Valentine, currently in review.
 Description of the data and file structure All tabular data are provided
 in comma-separated value form (.csv). File names refer to the figure
 numbers of the manuscript. All configuration files providing text
 descriptions of the user-defined parameters used to generate each set of
 barcodes are provided as .json files. Figure 1. Schematic and Graphical
 overview of the analysis workflow. No quantitative data are presented.
 Figure 2. Representative outputs of BARCODE 2A: Contains image data; no
 quantitative data are presented. 2B: Figure2B.csv. Outputs of Image
 Binarization Branch. (top row): contains binarized images; no quantitative
 data are presented. (middle row): Connectivity versus time. (bottom row):
 Island and void area versus time. Columns A-E represent data for Video 1;
 Columns F-J represent data for Video 2. ``` Column A: time array for
 connectivity (minutes); Video 1 Column B: connectivity; Video 1 Column C:
 time array for island and void areas (seconds); Video 1 Column D: void
 area; Video 1 Column E: island area; Video 1 Column F: time array for
 connectivity (minutes); Video 2 Column G: connectivity; Video 2 Column H:
 time array for island and void areas (seconds); Video 2 Column I: void
 area; Video 2 Column J: island area; Video 2 ``` 2C: Figure2C.csv. Outputs
 of Intensity Distribution Branch. (top row): probability distributions of
 pixel intensity for Video 1 and Video 2. Columns A-D represent probability
 data for Video 1; Columns E-H represent probability data for Video 2. ```
 Column A: Probability, time = 0 minutes; Video 1 Column B: Pixel
 Intensity, time = 0 minutes; Video 1 Column C: Probability, time = 6
 minutes; Video 1 Column D: Pixel Intensity, time = 6 minutes; Video 1
 Column E: Probability, time = 0 minutes; Video 2 Column F: Pixel
 Intensity, time = 0 minutes; Video 2 Column G: Probability, time = 6
 minutes; Video 2 Column H: Pixel Intensity, time = 6 minutes; Video 2 ```
 (bottom row): mode skewness, median skewness, and kurtosis versus time for
 Video 1 and Video 2. ``` Column I: time (minutes); Video 1 and Video 2
 Column J: max median skewness S\_{1,i}; Video 1 Column K: max mode
 skewness S\_{2,i}; Video 1 Column L: max Kurtosis K\_i; Video 1 Column M:
 max median skewness S\_{1,i}; Video 2 Column N: max mode skewness
 S\_{2,i}; Video 2 Column O: max Kurtosis K\_i; Video 2 ``` 2D: Outputs of
 Optical Flow Branch. 2D-top-row: Representative flow field outputs for
 (left) Video 1 at 6 minutes, and (right) Video 2 at 0 minutes.
 Figure2D-toprow-1.csv: x-y array of the x-component of the Video 1
 velocity field. Columns represent the x-position at which the velocity was
 measured. Rows represent the y-position at which the velocity was
 measured. Velocity units are micrometers/second. Optical flow settings are
 provided in the Figure2E-settings.json file. Figure2D-toprow-2.csv: x-y
 array of the y-component of the Video 1 velocity field. Columns represent
 the x-position at which the velocity was measured. Rows represent the
 y-position at which the velocity was measured. Velocity units are
 micrometers/second. Optical flow settings are provided in the
 Figure2E-settings.json file. Figure2D-toprow-3.csv: x-y array of the
 x-component of the Video 2 velocity field. Columns represent the
 x-position at which the velocity was measured. Rows represent the
 y-position at which the velocity was measured. Velocity units are
 micrometers/second. Optical flow settings are provided in the
 Figure2E-settings.json file. Figure2D-toprow-4.csv: x-y array of the
 y-component of the Video 2 velocity field. Columns represent the
 x-position at which the velocity was measured. Rows represent the
 y-position at which the velocity was measured. Velocity units are
 micrometers/second. Optical flow settings are provided in the
 Figure2E-settings.json file. Figure2D-bottom-row.csv: Column A: Time
 (minutes) Column B: Speed (microns/second); Video 1 Column C: Directional
 Spread; Video 1 Column D: Speed (microns/second); Video 2 Column E:
 Directional Spread; Video 2 2E: Figure2E.csv. Quantitative values for
 barcodes generated from Video 1 (row 3 in CSV file) and Video 2 (row 2 in
 CSV file). Column A: Filepath Column B: Channel Column C: Flags Column D:
 Connectivity Column E: Maximum Island Area Column F: Maximum Void Area
 Column G: Island Area Change Column H: Void Area Change Column I: Initial
 Maximum Island Area Column J: Initial 2nd Maximum Island Area Column K:
 Maximum Kurtosis Column L: Maximum Median Skewness Column M: Maximum Mode
 Skewness Column N: Kurtosis Change Column O: Median Skewness Changed
 Column P: Mode Skewness Change Column Q: Speed Column R: Speed Change
 Column S: Mean Flow Direction Column T: Flow Directional Spread
 Figure_2E_Settings.json: Configuration file providing the list of
 user-defined settings used to generate the barcodes shown in Figure 2E.
 This can be converted to a YAML file and inputted into BARCODE Figure 3.
 BARCODE validation in motor-driven cytoskeletal deposits. 3A: Schematics
 of experimental system. No quantitative data are presented. 3B: Images of
 cytoskeletal composites and images of temporal colormaps. No quantitative
 data are presented. 3C: Figure3C.csv. Quantitative values for barcodes
 generated using the actin channel of the video data. ``` Column A:
 Filepath Column B: Channel Column C: Flags Column D: Connectivity Column
 E: Maximum Island Area Column F: Maximum Void Area Column G: Island Area
 Change Column H: Void Area Change Column I: Initial Maximum Island Area
 Column J: Initial 2nd Maximum Island Area Column K: Maximum Kurtosis
 Column L: Maximum Median Skewness Column M: Maximum Mode Skewness Column
 N: Kurtosis Change Column O: Median Skewness Change Column P: Mode
 Skewness Change Column Q: Speed Column R: Speed Change Column S: Mean Flow
 Direction Column T: Flow Directional Spread ``` Figure_3C_Settings.json:
 Configuration file providing the list of user-defined settings used to
 generate the barcodes shown in Figure 3C. This can be converted to a YAML
 file and inputted into BARCODE. 3D: Figure3D.csv. Quantitative values for
 barcodes generated using the microtubule channel of the video data. ```
 Column A: Filepath Column B: Channel Column C: Flags Column D:
 Connectivity Column E: Maximum Island Area Column F: Maximum Void Area
 Column G: Island Area Change Column H: Void Area Change Column I: Initial
 Maximum Island Area Column J: Initial 2nd Maximum Island Area Column K:
 Maximum Kurtosis Column L: Maximum Median Skewness Column M: Maximum Mode
 Skewness Column N: Kurtosis Change Column O: Median Skewness Change Column
 P: Mode Skewness Change Column Q: Speed Column R: Speed Change Column S:
 Mean Flow Direction Column T: Flow Directional Spread ```
 Figure_3D_Settings.json: Configuration file providing the list of
 user-defined settings used to generate the barcodes shown in Figure 3D.
 This can be converted to a YAML file and inputted into BARCODE. 3E:
 Figure3E.csv. DDM speeds versus BARCODE speeds for the slow, fast, and
 multimode datasets. ``` Column A: Speed generated from BARCODE software
 (microns/second); Fast dataset, microtubules Column B: Speed generated
 from DDM algorithms (microns/second); Fast dataset, microtubules Column C:
 Speed generated from BARCODE software (microns/second); Fast dataset,
 actin Column D: Speed generated from DDM algorithms (microns/second); Fast
 dataset, actin Column E: Speed generated from BARCODE software
 (microns/second); Slow dataset, microtubules Column F: Speed generated
 from DDM algorithms (microns/second); Slow dataset, microtubules Column G:
 Speed generated from BARCODE software (microns/second); Slow dataset,
 actin Column H: Speed generated from DDM algorithms (microns/second); Slow
 dataset, actin Column I: Speed generated from BARCODE software
 (microns/second); Multimode dataset, microtubules Column J: Speed
 generated from DDM algorithms (microns/second); Multimode dataset,
 microtubules Column K: Speed generated from BARCODE software
 (microns/second); Multimode dataset, actin Column L: Speed generated from
 DDM algorithms (microns/second); Multimode dataset, actin ``` 3F:
 Figure3F.csv. Directional spread versus BARCODE speeds for the slow, fast,
 and multimode datasets. ``` Column A: Speed generated from BARCODE
 software (microns/second); Fast dataset, microtubules Column B:
 Directional Spread generated from BARCODE software (radians); Fast
 dataset, microtubules Column C: Speed generated from BARCODE software
 (microns/second); Fast dataset, actin Column D: Directional Spread
 generated from BARCODE software (radians); Fast dataset, actin Column E:
 Speed generated from BARCODE software (microns/second); Slow dataset,
 microtubules Column F: Directional Spread generated from BARCODE software
 (radians); Slow dataset, microtubules Column G: Speed generated from
 BARCODE software (microns/second); Slow dataset, actin Column H:
 Directional Spread generated from BARCODE software (radians); Slow
 dataset, actin Column I: Speed generated from BARCODE software
 (microns/second); Multimode dataset, microtubules Column J: Directional
 Spread generated from BARCODE software (radians); Multimode dataset,
 microtubules Column K: Speed generated from BARCODE software
 (microns/second); Multimode dataset, actin Column L: Directional Spread
 generated from BARCODE software (radians); Multimode dataset, actin ```
 3F-inset: Figure3F-inset.csv. Directional spread versus mean flow
 direction ``` Column A: Flow Direction generated from BARCODE software
 (radians); Fast dataset, microtubules Column B: Directional Spread
 generated from BARCODE software (radians); Fast dataset, microtubules
 Column C: Flow Direction generated from BARCODE software (radians); Fast
 dataset, actin Column D: Directional Spread generated from BARCODE
 software (radians); Fast dataset, actin Column E: Flow Direction generated
 from BARCODE software (radians); Slow dataset, microtubules Column F:
 Directional Spread generated from BARCODE software (radians); Slow
 dataset, microtubules Column G: Flow Direction generated from BARCODE
 software (radians); Slow dataset, actin Column H: Directional Spread
 generated from BARCODE software (radians); Slow dataset, actin Column I:
 Flow Direction generated from BARCODE software (radians); Multimode
 dataset, microtubules Column J: Directional Spread generated from BARCODE
 software (radians); Multimode dataset, microtubules Column K: Flow
 Direction generated from BARCODE software (radians); Multimode dataset,
 actin Column L: Directional Spread generated from BARCODE software
 (radians); Multimode dataset, actin ``` 3G: Figure3G.csv. Mode skewness
 change versus median skewness change ``` Column A: Median skewness change
 generated from BARCODE software; Fast dataset, microtubules Column B: Mode
 skewness change generated from BARCODE software; Fast dataset,
 microtubules Column C: Median skewness change generated from BARCODE
 software; Fast dataset, actin Column D: Mode skewness change generated
 from BARCODE software; Fast dataset, actin Column E: Median skewness
 change generated from BARCODE software; Slow dataset, microtubules Column
 F: Mode skewness change generated from BARCODE software; Slow dataset,
 microtubules Column G: Median skewness change generated from BARCODE
 software; Slow dataset, actin Column H: Mode skewness change generated
 from BARCODE software; Slow dataset, actin Column I: Median skewness
 change generated from BARCODE software; Multimode dataset, microtubules
 Column J: Mode skewness change generated from BARCODE software; Multimode
 dataset, microtubules Column K: Median skewness change generated from
 BARCODE software; Multimode dataset, actin Column L: Mode skewness change
 generated from BARCODE software; Multimode dataset, actin ``` 3H:
 Figure3H.csv. Directional spread versus maximum median skewness ``` Column
 A: Maximum median skewness generated from BARCODE software; Fast dataset,
 microtubules Column B: Directional Spread generated from BARCODE(radians)
 software; Fast dataset, microtubules Column C: Maximum median skewness
 generated from BARCODE software; Fast dataset, actin Column D: Directional
 Spread generated from BARCODE software (radians); Fast dataset, actin
 Column E: Maximum median skewness generated from BARCODE software; Slow
 dataset, microtubules Column F: Directional Spread generated from BARCODE
 software (radians); Slow dataset, microtubules Column G: Maximum median
 skewness generated from BARCODE software; Slow dataset, actin Column H:
 Directional Spread generated from BARCODE software (radians); Slow
 dataset, actin Column I: Maximum median skewness generated from BARCODE
 software; Multimode dataset, microtubules Column J: Directional Spread
 generated from BARCODE software (radians); Multimode dataset, microtubules
 Column K: Maximum median skewness generated from BARCODE software;
 Multimode dataset, actin Column L: Directional Spread generated from
 BARCODE software (radians); Multimode dataset, actin ``` 3I: Figure3I.csv.
 Initial 2nd maximum island area versus initial max island area ``` Column
 A: Initial maximum island area 1 generated from BARCODE software; Fast
 dataset, microtubules Column B: Initial second maximum island area 2
 generated from BARCODE software; Fast dataset, microtubules Column C:
 Initial maximum island area 1 generated from BARCODE software; Fast
 dataset, actin Column D: Initial second maximum island area 2 generated
 from BARCODE software; Fast dataset, actin Column E: Initial maximum
 island area 1 generated from BARCODE software; Slow dataset, microtubules
 Column F: Initial second maximum island area 2 generated from BARCODE
 software; Slow dataset, microtubules Column G: Initial maximum island area
 1 generated from BARCODE software; Slow dataset, actin Column H: Initial
 second maximum island area 2 generated from BARCODE software; Slow
 dataset, actin Column I: Initial maximum island area 1 generated from
 BARCODE software; Multimode dataset, microtubules Column J: Initial second
 maximum island area 2 generated from BARCODE software; Multimode dataset,
 microtubules Column K: Initial maximum island area 1 generated from
 BARCODE software; Multimode dataset, actin Column L: Initial second
 maximum island area 2 generated from BARCODE software; Multimode dataset,
 actin ``` 3J: Figure3J.csv. Maximum void area versus connectivity ```
 Column A: Connectivity generated from BARCODE software; Fast dataset,
 microtubules Column B: Maximum Void Area generated from BARCODE software;
 Fast dataset, microtubules Column C: Connectivity generated from BARCODE
 software; Fast dataset, actin Column D: Maximum Void Area generated from
 BARCODE software; Fast dataset, actin Column E: Connectivity generated
 from BARCODE software; Slow dataset, microtubules Column F: Maximum Void
 Area generated from BARCODE software; Slow dataset, microtubules Column G:
 Connectivity generated from BARCODE software; Slow dataset, actin Column
 H: Maximum Void Area generated from BARCODE software; Slow dataset, actin
 Column I: Connectivity generated from BARCODE software; Multimode dataset,
 microtubules Column J: Maximum Void Area generated from BARCODE software;
 Multimode dataset, microtubules Column K: Connectivity generated from
 BARCODE software; Multimode dataset, actin Column L: Maximum Void Area
 generated from BARCODE software; Multimode dataset, actin ``` 3J-inset:
 Figure3J-inset.csv. Maximum island area versus connectivity ``` Column A:
 Connectivity generated from BARCODE software; Fast dataset, microtubules
 Column B: Maximum Island Area generated from BARCODE software; Fast
 dataset, microtubules Column C: Connectivity generated from BARCODE
 software; Fast dataset, actin Column D: Maximum Island Area generated from
 BARCODE software; Fast dataset, actin Column E: Connectivity generated
 from BARCODE software; Slow dataset, microtubules Column F: Maximum Island
 Area generated from BARCODE software; Slow dataset, microtubules Column G:
 Connectivity generated from BARCODE software; Slow dataset, actin Column
 H: Maximum Island Area generated from BARCODE software; Slow dataset,
 actin Column I: Connectivity generated from BARCODE software; Multimode
 dataset, microtubules Column J: Maximum Island Area generated from BARCODE
 software; Multimode dataset, microtubules Column K: Connectivity generated
 from BARCODE software; Multimode dataset, actin Column L: Maximum Island
 Area generated from BARCODE software; Multimode dataset, actin ``` Figure
 4. BARCODE testing using diverse motor-driven cytoskeletal deposits. 4A:
 Schematics of experimental system and images of cytoskeletal composites.
 No quantitative data are presented. 4B: Figure4B.csv. Quantitative values
 for barcodes generated using the actin channel of the video data. ```
 Column A: Filepath Column B: Channel Column C: Flags Column D:
 Connectivity Column E: Maximum Island Area Column F: Maximum Void Area
 Column G: Island Area Change Column H: Void Area Change Column I: Initial
 Maximum Island Area Column J: Initial 2nd Maximum Island Area Column K:
 Maximum Kurtosis Column L: Maximum Median Skewness Column M: Maximum Mode
 Skewness Column N: Kurtosis Change Column O: Median Skewness Change Column
 P: Mode Skewness Change Column Q: Speed Column R: Speed Change Column S:
 Mean Flow Direction Column T: Flow Directional Spread ```
 Figure_4B_Settings.json: Configuration file providing the list of
 user-defined settings used to generate the barcodes shown in Figure 4B.
 This can be converted to a YAML file and inputted into BARCODE. 4C:
 Figure4C.csv. Quantitative values for barcodes generated using the actin
 channel of the video data. ``` Column A: Filepath Column B: Channel Column
 C: Flags Column D: Connectivity Column E: Maximum Island Area Column F:
 Maximum Void Area Column G: Island Area Change Column H: Void Area Change
 Column I: Initial Maximum Island Area Column J: Initial 2nd Maximum Island
 Area Column K: Maximum Kurtosis Column L: Maximum Median Skewness Column
 M: Maximum Mode Skewness Column N: Kurtosis Change Column O: Median
 Skewness Change Column P: Mode Skewness Change Column Q: Mean Speed Column
 R: Change Column S: Mean Flow Direction Column T: Flow Directional Spread
 ``` Figure_4C_Settings.json: Configuration file providing the list of
 user-defined settings used to generate the barcodes shown in Figure 4C.
 This can be converted to a YAML file and inputted into BARCODE. 4D:
 Figure4D.csv. Speed versus speed change, both generated from BARCODE.
 Units are nanometers/second in all cases. ``` Column A: Speed generated
 from BARCODE software; Global contraction dataset, myosin Column B: Speed
 change generated from BARCODE software; Global contraction dataset, myosin
 Column C: Speed generated from BARCODE software; Global contraction
 dataset, actin Column D: Speed change generated from BARCODE software;
 Global contraction dataset, actin Column E: Speed generated from BARCODE
 software; Local contraction dataset, myosin Column F: Speed change
 generated from BARCODE software; Local contraction dataset, myosin Column
 G: Speed generated from BARCODE software; Local contraction dataset, actin
 Column H: Speed change generated from BARCODE software; Local contraction
 dataset, actin Column I: Speed generated from BARCODE software;
 Critically-connected dataset, myosin Column J: Speed change generated from
 BARCODE software; Critically-connected dataset, myosin Column K: Speed
 generated from BARCODE software; Critically-connected dataset, actin
 Column L: Speed change generated from BARCODE software;
 Critically-connected dataset, actin ``` 4E: Figure4E.csv. Initial max
 island area versus Initial 2nd maximum island area ``` Column A: Initial
 maximum island area 1; Global contraction dataset, myosin Column B:
 Initial second maximum island area 2; Global contraction dataset, myosin
 Column C: Initial maximum island area 1; Global contraction dataset, actin
 Column D: Initial second maximum island area 2; Global contraction
 dataset, actin Column E: Initial maximum island area 1; Local contraction
 dataset, myosin Column F: Initial second maximum island area 2; Local
 contraction dataset, myosin Column G: Initial maximum island area 1; Local
 contraction dataset, actin Column H: Initial second maximum island area 2;
 Local contraction dataset, actin Column I: Initial maximum island area 1;
 Critically-connected dataset, myosin Column J: Initial second maximum
 island area 2; Critically-connected dataset, myosin Column K: Initial
 maximum island area 1; Critically-connected dataset, actin Column L:
 Initial second maximum island area 2; Critically-connected dataset, actin
 ``` 4F: Figure4F.csv. Median skewness change versus Mode skewness change
 ``` Column A: Median skewness change; Global contraction dataset, myosin
 Column B: Mode skewness change; Global contraction dataset, myosin Column
 C: Median skewness change; Global contraction dataset, actin Column D:
 Mode skewness change; Global contraction dataset, actin Column E: Median
 skewness change; Local contraction dataset, myosin Column F: Mode skewness
 change; Local contraction dataset, myosin Column G: Median skewness
 change; Local contraction dataset, actin Column H: Mode skewness change;
 Local contraction dataset, actin Column I: Median skewness change;
 Critically-connected dataset, myosin Column J: Mode skewness change;
 Critically-connected dataset, myosin Column K: Median skewness change;
 Critically-connected dataset, actin Column L: Mode skewness change;
 Critically-connected dataset, actin ``` 4G: Figure4G.csv. Island Area
 change versus Mode skewness change ``` Column A: Island Area change;
 Global contraction dataset, myosin Column B: Mode skewness change; Global
 contraction dataset, myosin Column C: Island Area change; Global
 contraction dataset, actin Column D: Mode skewness change; Global
 contraction dataset, actin Column E: Island Area change; Local contraction
 dataset, myosin Column F: Mode skewness change; Local contraction dataset,
 myosin Column G: Island Area change; Local contraction dataset, actin
 Column H: Mode skewness change; Local contraction dataset, actin Column I:
 Island Area change; Critically-connected dataset, myosin Column J: Mode
 skewness change; Critically-connected dataset, myosin Column K: Island
 Area change; Critically-connected dataset, actin Column L: Mode skewness
 change; Critically-connected dataset, actin ``` 4H: Figure4H.csv.
 Schematics of the experimental system and images of cytoskeletal
 composites. No quantitative data are presented. 4I: Figure4I.csv.
 Quantitative values for barcodes generated using the microtubule channel
 of the video data. ``` Column A: Filepath Column B: Channel Column C:
 Flags Column D: Connectivity Column E: Maximum Island Area Column F:
 Maximum Void Area Column G: Island Area Change Column H: Void Area Change
 Column I: Initial Maximum Island Area Column J: Initial 2nd Maximum Island
 Area Column K: Maximum Kurtosis Column L: Maximum Median Skewness Column
 M: Maximum Mode Skewness Column N: Kurtosis Change Column O: Median
 Skewness Change Column P: Mode Skewness Change Column Q: Speed Column R:
 Speed Change Column S: Mean Flow Direction Column T: Flow Directional
 Spread ``` Figure_4I_Settings.json: Configuration file providing the list
 of user-defined settings used to generate the barcodes shown in Figure 4B.
 This can be converted to a YAML file and inputted into BARCODE. 4J:
 Figure4J.csv. Speed versus speed change, both generated from BARCODE.
 Units are nanometers/second in all cases. ``` Column A: Speed generated
 from BARCODE software; crosslinked microtubules Column B: Speed change
 generated from BARCODE software; crosslinked microtubules Column C: Speed
 generated from BARCODE software; no crosslinking Column D: Speed change
 generated from BARCODE software; no crosslinking Column E: Speed generated
 from BARCODE software; crosslinked actin Column F: Speed change generated
 from BARCODE software; crosslinked actin ``` 4K: Figure4K.csv. Initial max
 island area versus Initial 2nd maximum island area ``` Column A: Initial
 maximum island area 1 generated from BARCODE software; crosslinked
 microtubules Column B: Initial second maximum island area 2 generated from
 BARCODE software; crosslinked microtubules Column C: Initial maximum
 island area 1 generated from BARCODE software; no crosslinking Column D:
 Initial second maximum island area 2 generated from BARCODE software; no
 crosslinking Column E: Initial maximum island area 1 generated from
 BARCODE software; crosslinked actin Column F: Initial second maximum
 island area 2 generated from BARCODE software; crosslinked actin ```
 4K-inset: Figure4K-inset.csv. Initial max island area versus Maximum
 island area ``` Column A: Initial maximum island area 1 generated from
 BARCODE software; crosslinked microtubules Column B: Maximum island area
 generated from BARCODE software; crosslinked microtubules Column C:
 Initial maximum island area 1 generated from BARCODE software; no
 crosslinking Column D: Maximum island area generated from BARCODE
 software; no crosslinking Column E: Initial maximum island area 1
 generated from BARCODE software; crosslinked actin Column F: Maximum
 island area generated from BARCODE software; crosslinked actin ``` 4L:
 Figure4L.csv. Maximum Median Skewness versus Maximum Kurtosis ``` Column
 A: Maximum Median Skewness generated from BARCODE software; crosslinked
 microtubules Column B: Maximum Kurtosis generated from BARCODE software;
 crosslinked microtubules Column C: Maximum Median Skewness generated from
 BARCODE software; no crosslinking Column D: Maximum Kurtosis generated
 from BARCODE software; no crosslinking Column E: Maximum Median Skewness
 generated from BARCODE software; crosslinked actin Column F: Maximum
 Kurtosis generated from BARCODE software; crosslinked actin ``` 4M:
 Figure4M.csv. Directional Spread versus Maximum Kurtosis ``` Column A:
 Directional Spread generated from BARCODE software (radians); crosslinked
 microtubules Column B: Maximum Kurtosis generated from BARCODE software;
 crosslinked microtubules Column C: Directional Spread generated from
 BARCODE software (radians); no crosslinking Column D: Maximum Kurtosis
 generated from BARCODE software; no crosslinking Column E: Directional
 Spread generated from BARCODE software (radians); crosslinked actin Column
 F: Maximum Kurtosis generated from BARCODE software; crosslinked actin ```
 Figure 5. BARCODE testing of cell monolayers. 5A: Images of cell
 monolayers. No quantitative data are presented. 5B: Figure5B.csv.
 Quantitative values for barcodes are shown. The CSV file contains
 outputted barcode parameters for 144 files. Rows 2 through 61 correspond
 to the higher (450/mm^2) initial seeding density. Rows 62 through 144
 correspond to the lower (300/mm^2) initial seeding density. Each row
 represents a distinct subsection "tile" of the overall
 large-format video. Each tile was continuously imaged for 89 hours.
 Channel 0 represents the channel imaging the cytoplasm. Channel 1
 represents the channel imaging the nuclei. In all cases, the following
 column assignments were used: ``` Column A: Filepath Column B: Channel
 Column C: Flags Column D: Connectivity Column E: Maximum Island Area
 Column F: Maximum Void Area Column G: Island Area Change Column H: Void
 Area Change Column I: Initial Maximum Island Area Column J: Initial 2nd
 Maximum Island Area Column K: Maximum Kurtosis Column L: Maximum Median
 Skewness Column M: Maximum Mode Skewness Column N: Kurtosis Change Column
 O: Median Skewness Change Column P: Mode Skewness Change Column Q: Speed
 Column R: Speed Change Column S: Mean Flow Direction Column T: Flow
 Directional Spread ``` Figure_5B_Settings_1.json: Configuration file
 providing the list of user-defined settings used to generate the barcodes
 shown in Figure 5B for the high-density condition, channel = 0 setting
 (cytoplasmic data; rows 2-31 in the Figure5B CSV file). This can be
 converted to a YAML file and inputted into BARCODE.
 Figure_5B_Settings_2.json: the barcodes shown in Figure 5B for the
 high-density condition, channel = 1 setting (nuclei data; rows 32-61 in
 the Figure5B CSV file). This can be converted to a YAML file and inputted
 into BARCODE. Figure_5B_Settings_3.json: Configuration file providing the
 list of user-defined settings used to generate the barcodes shown in
 Figure 5B for the low-density condition, channel = 0 setting (cytoplasmic
 data; rows 62-103 in the Figure5B CSV file). This can be converted to a
 YAML file and inputted into BARCODE. Figure_5B_Settings_4.json:
 Configuration file providing the list of user-defined settings used to
 generate the barcodes shown in Figure 5B for the low-density condition,
 channel = 1 setting (nuclei data; rows 104-45 in the Figure5B CSV file).
 This can be converted to a YAML file and inputted into BARCODE. 5C:
 Figure5C.csv. Speed versus speed change. Units in all cases are
 micrometers per hour. ``` Column A: Speed generated from BARCODE software;
 High Concentration, nuclei Column B: Speed change generated from BARCODE
 software; High Concentration, nuclei Column C: Speed generated from
 BARCODE software; Low Concentration, nuclei Column D: Speed change
 generated from BARCODE software; Low Concentration, nuclei Column E: Speed
 generated from BARCODE software; High Concentration, cytoplasm Column F:
 Speed change generated from BARCODE software; High Concentration,
 cytoplasm Column G: Speed generated from BARCODE software; Low
 Concentration, cytoplasm Column H: Speed change generated from BARCODE
 software; Low concentration, cytoplasm ``` 5D: Figure5D.csv. Initial
 Maximum Island Area versus Initial 2nd Maximum Island Area ``` Column A:
 Initial Maximum Island Area 1 generated from BARCODE software; High
 Concentration, nuclei Column B: Initial 2nd Maximum Island Area 2
 generated from BARCODE software; High Concentration, nuclei Column C:
 Initial Maximum Island Area 1 generated from BARCODE software; Low
 Concentration, nuclei Column D: Initial 2nd Maximum Island Area 2
 generated from BARCODE software; Low Concentration, nuclei Column E:
 Initial Maximum Island Area 1 generated from BARCODE software; High
 Concentration, cytoplasm Column F: Initial 2nd Maximum Island Area 2
 generated from BARCODE software; High Concentration, cytoplasm Column G:
 Initial Maximum Island Area 1 generated from BARCODE software; Low
 Concentration, cytoplasm Column H: Initial 2nd Maximum Island Area 2
 generated from BARCODE software; Low concentration, cytoplasm ``` 5E:
 Figure5E.csv. Void Area Change versus Mode Skewness Change ``` Column A:
 Void Area Change generated from BARCODE software; High Concentration,
 nuclei Column B: Mode Skewness Change generated from BARCODE software;
 High Concentration, nuclei Column C: Void Area Change generated from
 BARCODE software; Low Concentration, nuclei Column D: Mode Skewness Change
 generated from BARCODE software; Low Concentration, nuclei Column E: Void
 Area Change generated from BARCODE software; High Concentration, cytoplasm
 Column F: Mode Skewness Change generated from BARCODE software; High
 Concentration, cytoplasm Column G: Void Area Change generated from BARCODE
 software; Low Concentration, cytoplasm Column H: Mode Skewness Change
 generated from BARCODE software; Low concentration, cytoplasm ``` 5F:
 Figure5F.csv. Connectivity versus Maximum Median Skewness ``` Column A:
 Connectivity generated from BARCODE software; High Concentration, nuclei
 Column B: Maximum Median Skewness generated from BARCODE software; High
 Concentration, nuclei Column C: Connectivity generated from BARCODE
 software; Low Concentration, nuclei Column D: Maximum Median Skewness
 generated from BARCODE software; Low Concentration, nuclei Column E:
 Connectivity generated from BARCODE software; High Concentration,
 cytoplasm Column F: Maximum Median Skewness generated from BARCODE
 software; High Concentration, cytoplasm Column G: Connectivity generated
 from BARCODE software; Low Concentration, cytoplasm Column H: Maximum
 Median Skewness generated from BARCODE software; Low concentration,
 cytoplasm ``` 5G: Figure5G.csv. Images of cell monolayers. No quantitative
 data are presented. 5H: Figure5H.csv. Quantitative values for barcodes are
 shown. Channel 0 represents the channel used for phase contrast imaging.
 Channel 1 represents the channel used to image the nuclei. In all cases,
 the following column assignments were used: ``` Column A: Filepath Column
 B: Channel Column C: Flags Column D: Connectivity Column E: Maximum Island
 Area Column F: Maximum Void Area Column G: Island Area Change Column H:
 Void Area Change Column I: Initial Maximum Island Area Column J: Initial
 2nd Maximum Island Area Column K: Maximum Kurtosis Column L: Maximum
 Median Skewness Column M: Maximum Mode Skewness Column N: Kurtosis Change
 Column O: Median Skewness Change Column P: Mode Skewness Change Column Q:
 Speed Column R: Speed Change Column S: Mean Flow Direction Column T: Flow
 Directional Spread ``` Figure_5H_Settings.json: Configuration file
 providing the list of user-defined settings used to generate the barcodes
 shown in Figure 5H. This can be converted to a YAML file and inputted into
 BARCODE. 5I: Figure5I.csv. Speed versus speed change. Units in all cases
 are micrometers per hour. ``` Column A: Speed generated from BARCODE
 software; nuclei Column B: Speed change generated from BARCODE software;
 nuclei Column C: Speed generated from BARCODE software; phase contrast
 Column D: Speed change generated from BARCODE software; phase contrast ```
 5J: Figure5J.csv. Initial Maximum Island Area versus Initial 2nd Maximum
 Island Area ``` Column A: Initial Maximum Island Area 1 generated from
 BARCODE software; nuclei Column B: Initial 2nd Maximum Island Area 2
 generated from BARCODE software; nuclei Column C: Initial Maximum Island
 Area 1 generated from BARCODE software; phase contrast Column D: Initial
 2nd Maximum Island Area 2 generated from BARCODE software; phase contrast
 ``` 5K: Figure5K.csv. Void Area Change versus Mode Skewness Change ```
 Column A: Void Area Change generated from BARCODE software; nuclei Column
 B: Mode Skewness Change generated from BARCODE software; nuclei Column C:
 Void Area Change generated from BARCODE software; phase contrast Column D:
 Mode Skewness Change generated from BARCODE software; phase contrast ```
 5L: Figure5L.csv. Connectivity versus Maximum Median Skewness ``` Column
 A: Connectivity generated from BARCODE software; nuclei Column B: Maximum
 Median Skewness generated from BARCODE software; nuclei Column C:
 Connectivity generated from BARCODE software; phase contrast Column D:
 Maximum Median Skewness generated from BARCODE software; phase contrast
 ```