Question: weird to see top gene mutation frequency on my dashboard (plotmafSummary(maf))
0
gravatar for gaom001
6 weeks ago by
gaom00110
gaom00110 wrote:

Is there anyone knows what is going on here? Never saw this before.

enter image description here

R maf • 168 views
ADD COMMENTlink modified 6 weeks ago by h.mon31k • written 6 weeks ago by gaom00110
1

What is odd here? That all frequencies are 67%? That all bars have the same length, even if they all have the same frequency of 67%? Please be considerate and provide more details and background.

You either missed a deadline at March, 4, or Excel mangled some gene names - I guess the later occurred. See Mistaken Identifiers: Gene name errors can be introduced inadvertently when using Excel in bioinformatics and Gene name errors are widespread in the scientific literature for background on the problem. You can try to fix the gene names with Truke, a web tool to check for and handle excel misidentified gene symbols. The latest funny (and sad) development on this issue is Scientists rename human genes to stop Microsoft Excel from misreading them as dates.

ADD REPLYlink written 6 weeks ago by h.mon31k

Yes, they have same percentage, but the top gene bar length is longer than others which have same percentage. I tried more samples today, and it did show again. It is very weried, but I found one gene called 4-Mar in my csv file. lol...

Thank you again.

ADD REPLYlink modified 6 weeks ago • written 6 weeks ago by gaom00110

enter image description here

ADD REPLYlink modified 6 weeks ago • written 6 weeks ago by gaom00110
2
gravatar for Kevin Blighe
6 weeks ago by
Kevin Blighe65k
Kevin Blighe65k wrote:

Your sample number could be low.

ADD COMMENTlink written 6 weeks ago by Kevin Blighe65k
1

You are right, I only have 3 samples. I tried more samples today, and I did not see this odd again. The length of the top gene bar is same as others for more samples.

ADD REPLYlink written 6 weeks ago by gaom00110
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