GSR: Simulator - SQANTI-SIM

Basic Package Attributes
Attribute	Value
Title	SQANTI-SIM
Short Description	Simulator for controlled transcript novelty in long-read RNA-seq benchmarks.
Long Description	SQANTI-SIM generates ONT and PacBio transcriptome long reads with controlled transcript novelty based on SQANTI3 structural categories, wrapping NanoSim, PBSIM3, and IsoSeqSim and optionally producing matching Illumina and CAGE data.
Keywords	long-read RNA-seq; transcriptome simulation; ONT; PacBio; SQANTI3; NanoSim; PBSIM3
Version	3.0
Homepage	https://github.com/ConesaLab/SQANTI-SIM
Citations
GSR Certification	This simulator has not yet been evaluated for GSR Certification. Learn more about or request GSR Certification.
Author verification	The basic description provided was derived from a website or publications by the GSR team and has not yet been verified by the simulation author. To modify this entry or add more information, propose changes to this simulator.

Detailed Attributes
Attribute Category	Attribute
Target
Type of Simulated Data	Sequencing Reads,
Variations
Simulation Method
Input
Data Type
File format
Output
Data Type	Genotype or Sequence,
Sequencing Reads
File Format	Fasta or Fastq,
Sample Type
Phenotype
Trait Type
Determinants
Evolutionary Features
Demographic
Population Size Changes
Gene Flow
Spatiality
Life Cycle
Mating System
Fecundity
Natural Selection
Determinant
Models
Recombination
Mutation Models
Events Allowed
Other
Interface	Command-line, Script-based,
Development
Tested Platforms	Linux and Unix,
Language
License	GNU Public License,
GSR Certification

Number of Primary Citations: 0

Number of Non-Primary Citations: 0

No example publication using SQANTI-SIM has been provided.

Please propose new citations if you are aware of publications that use this software.

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