download gene list

[Neha Gupta]

hi
i can visualize my gene expression data.want to export list of genes expressed from it in tabulated or text format.
thanks
neha

[James Robinson]

Hi,

Sorry I don’t understand what you are trying to do.   Could you describe in more detail?

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[Neha Gupta]

hi
i want the list of genes shown on my data with respect to reference genome along with their coordinates outside IGV. in a format table or text which i can use outside IGV. simliarly i want to get the list of genes with their coordinates form reference genome as well.
how can i do it?

[Jim Robinson]

Sorry this still doesn't make sense to me, what do you mean "shown on my data"?  If you are referring to the refseq genes IGV loads by default you can download it from UCSC and other sources.   You did not specify a genome assembly but, for example, the hg38 database is here:  http://hgdownload.cse.ucsc.edu/goldenPath/hg38/database/.  Search for refGene.txt.gz,  download and gunzip it. 

IGV is a tool for visualizing data that you load into it,  it doesn't really produce anything for export.

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