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Motivation: Accurate sequence length profiling is essential in bioinformatics, particularly in genomics and proteomics. Existing tools like SeqKit and the Trinity toolkit, among others provide basic sequence statistics but often fall short in offering comprehensive analytics and plotting options. For instance, SeqKit is a very complete and fast tool for sequence analyses, that delivers useful metrics (e.g., number of sequences, average, minimum, maximum length), and can returns the range of sequence shorter or longer (one side, not both at once) on a given lengths. Similarly, Trinity's utility pearl-based scripts provide detailed contig length distributions (e.g., N50, median, and average lengths) but do not encompass the total number of sequences nor offer graphical representations of data. Results: Given that key sequence analysis tasks are distributed among separate tools, we introduce SeqLengthPlot: an easy-to-use Python-based script that fills existing gaps in bioinformatics tools on sequence length profiling, crucial. SeqLengthPlot generates comprehensive statistical summaries, filtering and automatic sequences retriving from the input FASTA (nucleotide and proteins) file into two distinct files based on a tunable, user-defined sequence length, as well as the plots or dynamic visualizations of the corresponding sequences.
Competing Interest Statement
The authors have declared no competing interest.
Footnotes
* In this version of the preprint, I have included the SeqLengthPlot Python script, along with the input and output files used for the analysis, to facilitate reproducibility of this previous version. Please note that a new version of SeqLengthPlot, introducing significant enhancements such as command-line functionality through flags, has been released alongside the corresponding peer-reviewed article (https://academic.oup.com/bioinformaticsadvances/article/5/1/vbae183/7905457). The GitHub repository has also been updated to reflect the latest version of the script. This update aims to avoid confusion for users cloning the repository and provides resources for testing the new version.
* https://github.com/danydguezperez/SeqLengthPlot
* http://dx.doi.org/10.17632/pmxwfjyyvy.1
* http://dx.doi.org/10.17632/3rtbr7c9s8.1
* http://dx.doi.org/10.17632/wn5kbk5ryy.1
* http://dx.doi.org/10.17632/sh79mdcm2c.1
* http://dx.doi.org/10.17632/zmvvff35dx.1