Comments (3)
Hi Mrinal,
Thanks for trying out simuG!
In its current implementation, simuG is for simulating the genome but not the reads, but you can simulate reads using read simulator (e.g. ART for Illumina reads) based on the simulated genome generated by simuG. You can check the supplementary note of our simuG paper for how to do this. After generating the simulated reads, you can map them back to the reference genome to call variants that were introduced by simuG. The supplementary note should also guide you to this point.
Please let me know if you have further questions.
Best,
Jia-Xing
from simug.
from simug.
You are welcome! :-)
I am closing this issue now.
Best,
Jia-Xing
from simug.
Related Issues (14)
- Use of uninitialized value in substr at simuG.pl line 1164. HOT 5
- how to simulate genomes with multiple types of variants HOT 2
- Argument "QUAL" isn't numeric in numeric ge (>=) at simuG.pl line 815, <$fh> line 6. HOT 3
- Simulating heterozygous SNPs? HOT 1
- How to simulate SV (insertions and deletions) with length > 50bp? HOT 3
- Does simuG generate paired end data? HOT 2
- Use of uninitialized value in substr at [...] line 1158 HOT 3
- Changing power-law distribution alpha and constant HOT 2
- slow CNV creation HOT 3
- Issue with -gene_gff file.gff -coding_partition_for_snp_simulation "coding" HOT 13
- Uncertainty in description HOT 1
- Multicore execution HOT 1
- Uninitialize value when using gene gff option HOT 4
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