hello,
Can you explain me what's a reads Simulation or Read Silulator? and what's the simulation data or Reads? Thanks
hello,
Can you explain me what's a reads Simulation or Read Silulator? and what's the simulation data or Reads? Thanks
Following description is from ART website but you can replace word ART
with any other simulation program
ART simulates sequencing reads by mimicking real sequencing process with empirical error models or quality profiles summarized from large recalibrated sequencing data. ART can also simulate reads using user own read error model or quality profiles. ART supports simulation of single-end, paired-end/mate-pair reads of three major commercial next-generation sequencing platforms: Illumina's Solexa, Roche's 454 and Applied Biosystems' SOLiD. ART can be used to test or benchmark a variety of method or tools for next-generation sequencing data analysis, including read alignment, de novo assembly, SNP and structure variation discovery.
http://www.niehs.nih.gov/research/resources/software/biostatistics/art/
A read simulator takes a sequence and generates fake fastq files from it. These generally will have an error profile vaguely similar to that actually seen on a (typically Illumina) sequencer.
https://github.com/OpenGene/SeqMaker.jl
Next Generation Sequencing simulation with SNP, Variation and Sequencing Error Integrated
I have written this tutorial on how to simulate reads for single-cell genomes and metagenomics. It covers how to simulate Illumina (NovaSeq, HiSeq or MiSeq), Pacific Biosciences (PacBio) SMRT, and Oxford Nanopore reads.