Importing hg18 reference genome

answered 2014-05-02 16:15:07 -0600

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Hi Danny,

GenomeBrowse can support reference sequences for any species or build as long as there is reference allele FASTA file available for that genome assembly. For the human hg18 (NCBI36) build we already have a reference sequence created and available for download from our Public Annotations servers.

You go to File > Add and select the Public Annotations tab and then select to show all human allele sequence tracks, you should see "Reference Sequence NCBI36, UCSC" track available for download.

If you are using this build to load BAM files then you will need to make sure the chromosome names and lengths used to the header of the BAM file match exactly what is in the Genome Assembly file for this build. You can find the assembly file by going to Tools > Program Folder and inside the GenomeMaps folder will be text assembly file that lists the specifics for this build.

Let me know if you have any further questions.

Thanks, Jami...