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Old 05-26-2020, 06:43 AM   #1
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Location: Eibar

Join Date: Mar 2018
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Default GRCm38 and mm10 reference genomes, Which one to use?

Hy everybody!
I have received the fastq files of some Bisulfite sequencing samples. For the sequencing they have used "gem3.mmusculus.GRCm38_BS" as a reference. But I am not sure what genome to use for the alingment(the GRCm38 or the mm10 from the UCSC), because I have other older RNA sequences anayzed with the mm10 reference genome, and I would like to compare both of them in the future.
- Is it posible to compare some sequences with the GRC38 genome and others with the mm10 genome, for example at the UCSC genome browser (with the bedgraph files I mean)?
- Is there a way to change something in the fastq files of the bisulfite sequencing for example to finally do the alignment with the mm10 reference genome?

Thanks in advance,

iramai is offline   Reply With Quote

grcm38, mm10, reference genomes

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