chonglc / seqrandomizer

A tool to generate a random viral protein sequence dataset

seqRandomizer: A tool to generate random viral protein sequence datasets

A random protein sequence dataset can be useful for various sequence analysis, in particular to evaluate and correct the analysis for background noise. Herein, we offer a tool that can generate a dataset of random viral protein sequences.

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Usage

python seqRandomizer.py [-h] [-o OUTPUT] [-l SEQLEN] [-n SEQNUM]

In the usage case below, the seqRandomizer tool is applied to generate a random viral protein sequence dataset in the folder result, named random_vprot.fasta consisting of 1,000 sequences of length 1,000 amino acids. The amino acid composition of the random sequences is based on all reported viral sequence retrieved from the NCBI Protein database (as of May 2021; allVirus080521.fasta).

python seqRandomizer.py -o random_vprot.fasta -l 1000 -n 1000

Command-line Arguments

Argument	Parameter	Type	Required	Description
-h	help	N/A	FALSE	Show this help message and exit
-o	output	String	TRUE	Path of the output file to be created
-l	seqlen	Integer	TRUE	The length of random protein sequences to be generated
-n	seqnum	Integer	TRUE	The number of random protein sequences to be generated

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Important Note for Users

• This seqRandomizer is specific to the protocol describing the step-by-step utility of UNIQmin.

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Found a bug?

Or would like a feature added? Or maybe drop some feedback? Just open a new issue or send an email to us ([email protected]).