App::Sandy - App builder that simulates single-end and paired-end reads.
sandy [options] sandy help <command> sandy <command> ... Options: -h, --help brief help message -u, --man full documentation Help commands: help show application or command-specific help man show application or command-specific documentation Misc commands: version print the current version citation export citation in BibTeX format Database commands: quality manage quality profile database expression manage expression-matrix database variation manage structural variation database Main commands: genome simulate genome sequencing transcriptome simulate transcriptome sequencing
SANDY is a bioinformatics tool that provides a simple engine to simulate next-generation sequencing for genomic and transcriptomic data. Simulated data works as experimental control - a key step to optimize NGS analysis - in comparison to hypothetical models. SANDY is a straightforward, easy-to-use, fast and highly customizable tool that generates reads requiring only a FASTA file as input. SANDY can simulate single/paired-end reads from both whole exome sequencing and RNA-seq as if produced from the most used second and third-generation sequencing platforms. SANDY’s reads can be simulated with genetic variations such as SNVs, indels and gene fusions. For customization purposes, SANDY have built-in (native) databases that can be easily extended with varying gene/transcript expression profiles, sequencing errors, sequencing coverages and genomic variations.
Thiago L. A. Miller <email@example.com>
J. Leonel Buzzo <firstname.lastname@example.org>
Felipe R. C. dos Santos <email@example.com>
Helena B. Conceição <firstname.lastname@example.org>
Rodrigo Barreiro <email@example.com>
Gabriela Guardia <firstname.lastname@example.org>
Fernanda Orpinelli <email@example.com>
Pedro A. F. Galante <firstname.lastname@example.org>
This software is Copyright (c) 2018 by Teaching and Research Institute from Sírio-Libanês Hospital.
This is free software, licensed under:
The GNU General Public License, Version 3, June 2007