Journal: STAR Protocols

Article Title: Protocol for recording and analyzing spontaneous locomotion in Drosophila

doi: 10.1016/j.xpro.2022.101888

Figure Lengend Snippet: MATLAB interface after selection of the FlyTracker folder

Article Snippet: Timing: 10 min–2 h This step processes the video recorded in the previous step with the MATLAB FlyTracker software that is able to detect multiple flies and track the position, orientation, angle of the wings and legs, and the distance to the wall of the chamber housing the fly.

Techniques: Selection

Journal: STAR Protocols

Article Title: Protocol for recording and analyzing spontaneous locomotion in Drosophila

doi: 10.1016/j.xpro.2022.101888

Figure Lengend Snippet: The FlyTracker interface

Article Snippet: Timing: 10 min–2 h This step processes the video recorded in the previous step with the MATLAB FlyTracker software that is able to detect multiple flies and track the position, orientation, angle of the wings and legs, and the distance to the wall of the chamber housing the fly.

Techniques:

Journal: STAR Protocols

Article Title: Protocol for recording and analyzing spontaneous locomotion in Drosophila

doi: 10.1016/j.xpro.2022.101888

Figure Lengend Snippet: The FlyTracker interface after loading of the tracking folder

Article Snippet: Timing: 10 min–2 h This step processes the video recorded in the previous step with the MATLAB FlyTracker software that is able to detect multiple flies and track the position, orientation, angle of the wings and legs, and the distance to the wall of the chamber housing the fly.

Techniques:

Journal: STAR Protocols

Article Title: Protocol for recording and analyzing spontaneous locomotion in Drosophila

doi: 10.1016/j.xpro.2022.101888

Figure Lengend Snippet: The FlyTracker interface after calibration

Article Snippet: Timing: 10 min–2 h This step processes the video recorded in the previous step with the MATLAB FlyTracker software that is able to detect multiple flies and track the position, orientation, angle of the wings and legs, and the distance to the wall of the chamber housing the fly.

Techniques:

Journal: STAR Protocols

Article Title: Protocol for recording and analyzing spontaneous locomotion in Drosophila

doi: 10.1016/j.xpro.2022.101888

Figure Lengend Snippet: The folder and files output by FlyTracker in the tracking folder directory

Article Snippet: Timing: 10 min–2 h This step processes the video recorded in the previous step with the MATLAB FlyTracker software that is able to detect multiple flies and track the position, orientation, angle of the wings and legs, and the distance to the wall of the chamber housing the fly.

Techniques:

Journal: STAR Protocols

Article Title: Protocol for recording and analyzing spontaneous locomotion in Drosophila

doi: 10.1016/j.xpro.2022.101888

Figure Lengend Snippet:

Article Snippet: Timing: 10 min–2 h This step processes the video recorded in the previous step with the MATLAB FlyTracker software that is able to detect multiple flies and track the position, orientation, angle of the wings and legs, and the distance to the wall of the chamber housing the fly.

Techniques: Software

Journal: Biology

Article Title: Using a Combination of Novel Research Tools to Understand Social Interaction in the Drosophila melanogaster Model for Fragile X Syndrome

doi: 10.3390/biology13060432

Figure Lengend Snippet: Differences between dFMR1 B55 and w 1118 in activity and Social Interaction Network (SIN) measures. Column bar graph (mean and standard deviation) for 15 dFMR1 B55 ( n = 450 flies) and 15 w 1118 groups ( n = 450 flies), for the following measures: ( a ) total distance traveled expressed in mm; ( b ) velocity expressed in mm/s; ( c ) total edges; ( d ) average degree; ( e ) average in/out strength weighted for count; ( f ) average in/out strength weighted for duration; ( g ) network density; ( h ) global efficiency; ( i ) heterogeneity; ( j ) assortativity; ( k ) transitivity; ( l ) average clustering coefficient; ( m ) average betweenness centrality; ( n ) average closeness centrality; and ( o ) modularity. Data are extracted from 15 min videos using FlyTracker and analyzed using the Python data processing pipeline. p -values less than 0.05 are taken as significant. Column bars represent the mean values of 450 flies per group (15 experiments with 30 flies per group) with the whiskers representing the standard deviation. This information can be useful for understanding the high variability in almost all the graphs. Abbreviations: *** p < 0.0001; dFMR1 B55 - Drosophila melanogaster model of fragile X syndrome; w 1118 —wild type, Drosophila melanogaster.

Article Snippet: Fly tracking was done using the open source software Caltech FlyTracker 1.1.2, developed using MATLAB v. R2023a.

Techniques: Activity Assay, Standard Deviation

Journal: Communications Biology

Article Title: The Divider Assay is a high-throughput pipeline for aggression analysis in Drosophila

doi: 10.1038/s42003-020-01617-6

Figure Lengend Snippet: a Schematic of the Divider Assay setup and experimental time line. Collecting, isolating, and loading flies are done in one step under 5 min. Flies are then isolated on clear food until they are videotaped. b Recorded video analysis can be done manually (yellow), with a newly developed JAABA-based classifier to precisely score lunges (green), or with existing CADABRA software (red). c Sixty pairs of flies with lunges ranging from 0 to 700 were analyzed manually, with a new JAABA-based classifier, and CADABRA. For this analysis, four groups of fighting intensities were chosen: 0–20, 21–100, 101–300, and >300 lunges. The JAABA-based classifier performed close to the gold standard with no significant differences in any group (Kruskal–Wallis ANOVA with Dunn’s test and Bonferroni correction 0–20, p = 1.0; 21–100, p = 0.55; 101–300, p = 0.75; >300, p = 1.0, n = 15 per group). CADABRA tended to overscore low fighting flies, but significantly underscored high fighting pairs (Kruskal–Wallis ANOVA with Dunn’s test and Bonferroni correction, 0–20: p = 0.08, n = 14; 21–100: p = 0.03; 101–300: p < 0.0001; >300: p < 0.0001, n = 15 per group) (see also Supplementary Fig. , for Gardner–Altman estimation plots). d Regression analysis between manual scoring and classifier ( R 2 = 0.98, p < 0.0001, n = 60) or CADABRA ( R 2 = 0.87, p < 0.0001, n = 59) are both highly significant. e Misclassified lunges with the JAABA-based classifier occur at low frequency in both low and high fighting pairs (false positives ~5% and false negatives ~8%). Boxplots show the median, first and third quartiles as boxes, with whiskers representing the 5 and 95% intervals.

Article Snippet: Movies with multiple fly pairs were tracked simultaneously using FlyTracker v1.0.5 software , and tracked movies were analyzed in JAABA (Janelia Automated Animal Behavior Analysis) software , both run in MATLAB.

Techniques: Isolation, Software