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6.0 years ago
MAPK
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2.1k
I have a data like below. I want to make a plot where I want to map each locus to the genome sequence (Chr 1..15 as X axis) and show the counts in Y axis. How can I create that type of plot? Is there any bioconductor package to do this?
locus counts
SS1G_03009 40
SS1G_02499 10
SS1G_09248 10
SS1G_09768 22
SS1G_04468 22
SS1G_08838 11
SS1G_02828 23
Yes, that would do, but I need to get the
chr
,start
andend
information for the given loci. How can I extract that from NCBI or using genes and genome fasta files? Or using the package you have suggested, I would need BP variable, so I am not sure how I can obtain that.Recall the NCBI unix utils answers provided by @vvkodali to one of your past questions. You should be able to use that to get the info you are asking for above.
Thank you so much, I just got it :)