Genome Browser

genome browser

This example presents a simple genome browser visualization built with D3.js, displaying four annotated genes along a linear genome sequence. It shows the relative positions and orientations of genes as colored rectangles, with green indicating forward direction and blue indicating reverse direction, placed above and below a central axis respectively. The visualization includes a ruler with tick marks at 100, 500, and 1000 base-pair intervals, computed programmatically from the genome length. Using SVG rendering with animations, the code loads gene data from a JSON file, then uses D3 transitions to animate gene rectangles growing into place and tick marks drawing themselves sequentially, while gene name labels fade in after a delay.

AAdamBlaine1

92% match

genome browser

This visualization presents a linear genome browser for a synthetic DNA sequence, displaying four annotated genes along a horizontal genomic axis. It shows the relative positions, lengths, and orientations (forward in green, reverse in red) of each gene, with staggered vertical offsets for readability. The visualization animates the appearance of gene blocks and labels using D3 transitions, and it renders tick marks at 1000, 500, and 100 base-pair intervals to indicate scale. The code uses D3’s selection and transition methods (e.g., `.transition().delay().duration()`) to sequentially reveal the genome, starting with the ruler, then the gene rectangles, and finally the text labels. Gene data comes from a JSON file, and the scale is fixed at one pixel per ten base pairs, with the SVG width set to one-tenth of the genome length.

The genome browser

This visualization presents a genome browser that displays gene sequences along a linear genome track, with forward and reverse genes color-coded in green and red. It shows how genes are positioned and oriented within a genome, with tick marks marking 100, 500, and 1000 base-pair intervals. The view animates gene rectangles from an initial off-track position into their correct places along the track, while labels for gene names and phage numbers fade in sequentially. The code uses D3.js (version 3.5.5) to bind JSON data, manipulate SVG elements, and apply transitions.

AAdamBlaine1

genome browser

This genome browser visualizes gene positions along a linear genomic sequence of 7,800 base pairs, with genes colored green for forward direction and blue for reverse. The D3.js (v3.5.5) code loads gene coordinates from a JSON file and animates their rectangles growing from zero height to full size after a 3-second delay. A separate set of tick marks, generated by iterating through all genome positions, appears at 1000, 500, and 100 base-pair intervals, with each tier’s marks animating in sequence to build the ruler. The SVG rendering includes a white backbone rectangle and black tick lines, all scaled by dividing base-pair coordinates by 10 for display.

genome browser

This genome browser visualizes gene positions and orientations along a linear genome sequence, using green and red rectangles to indicate forward and reverse directions. The D3.js visualization renders a horizontal track with base-pair tick marks and interactive tooltips that appear on hover. Users can click a gene to trigger a BLAST link, while a hidden tooltip displays additional sequence details. The genes are loaded from a JSON file, and their layout staggers by parity to reduce overlap.

genome browser

This genome browser visualizes gene positions along a linear genome sequence, with genes drawn as colored rectangles that animate downward into place above and below a central axis based on their forward or reverse direction. The SVG rendering uses D3.js to bind gene data from a JSON file, while tick marks at 100, 500, and 1,000 base-pair intervals are animated with staggered transitions. The code relies on `d3.json` for data loading, `transition().duration()` for sequential animations, and `attr("transform")` to position tick groups. The genome length is fixed at 7,800 base pairs, with gene labels fading in after the rectangles settle.

AAdamBlaine1

89% match

genome browser(testing3)

This example presents a genome browser visualization that maps four genes across an 8,000-base-pair genome, displaying each gene’s position, direction, and pham identifier. It shows gene orientation and relative size through animated rectangles that slide into place from outside the genome track, with labels and tick marks for scale. The visualization uses D3.js (v3) selections, data binding with `d3.json`, and `transition` to animate the rectangles. Tick marks for thousands, five-hundreds, and hundreds are generated programmatically, and the genome length and gene data come from an external JSON file.

DDarius9

89% match

genome browser

This genome browser visualizes gene annotations along a linear genome, using an animated D3.js layout to reveal gene positions, directions, and associated pham identifiers. The example loads gene data from a JSON file and renders each gene as a colored rectangle—green for forward direction and red for reverse—on a track with tick marks every 1000 bases. The initial view places genes off-screen, then transitions them into position over 1.5 seconds, with gene and pham labels fading in afterward. The code uses D3's `selection.transition` for animations and SVG for rendering, with tick marks generated from computed genome positions.