trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and full-length sequencing datasets.
This is free and open source software.
Key Features
- Supports almost all NGS data format, including:
- BAM.
- Bed.
- Depth file generated by samtools depth.
- bigBed [pyBigWig optional].
- bigWig [pyBigWig optional].
- naive Hi-C format [hicmatrix optional].
- Support various file formats as input.
- Support strand-aware coverage plot.
- Visualize coverage by heatmap, including HiC diagram.
- Visualize protein domain based the given gene id.
- Demultiplex the single-cell RNA/ATAC-seq which used cell barcode into cell population.
- Support visualizing individual full-length reads in read-by-read style.
- Support visualize circRNA sequencing data.
Website: github.com/ygidtu/trackplot
Support:
Developer: Zhong Lab @ UCSD
License: Apache License 2.0
trackplot is written in Python. Learn Python with our recommended free books and free tutorials.
Related Software
| Web-Based Desktop Genome Browsers | |
|---|---|
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| Genome Browser | Interactively visualize genomic data |
| GDV | Exploration and analysis of eukaryotic RefSeq genome assemblies |
| HiGlass | Explore and compare genomic contact matrices and tracks |
| igv.js | Embeddable genomic visualization |
| NGB | Web-based NGS data viewer |
| JBrowse 2 | Modern React-based genome browser |
| trackplot | Visualize various next-generation sequencing data |
| GIVE | Genomic Interactive Visualization Engine |
| Genoverse | HTML5 scrollable genome browser |
| Epigenome Browser | Visualization, integration and analysis tools for epigenomic datasets |
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