Misaligned chromosomes and snps in circular Manhattan Plot

[Lydiamli]

Hi YinLi,
Thank you for creating this tool. I am using it to create a circular Manhattan plot (see below). However, the chromosomes and snps are misaligned. Note that my data doesnt have chromosome 15.

Here is my code
CMplot(as.data.frame(shetSig), plot.type="c", chr.labels= sorted_chr, band = 3, cir.band = 5, r=0.5, axis.cex= 1.5, lab.cex = 1.6, outward=FALSE, cir.chr.h= 1, chr.border = TRUE, chr.den.col="black", file="jpg", dpi=500, file.output=TRUE)

Thanks,
Lydia

[YinLiLin]

May I please ask for your data to debug this issue? Thanks.

[Lydiamli]

Hi YinLi, Thank you for getting back to me. See the attached my data. Best, Lydia

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________________________________ 发件人: Lilin Yin ***@***.***> 发送时间: 2025年3月26日 18:30 收件人: YinLiLin/CMplot ***@***.***> 抄送: Amino ***@***.***>; Author ***@***.***> 主题: Re: [YinLiLin/CMplot] Misaligned chromosomes and snps in circular Manhattan Plot (Issue #142) May I please ask for your data to debug this issue? Thanks. ― Reply to this email directly, view it on GitHub<#142 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AT36NRWOJ2NWTDRQUXYUB5L2WNIETAVCNFSM6AAAAABZXUDWUWVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDONJWGE4TQOJUGE>. You are receiving this because you authored the thread.Message ID: ***@***.***> [YinLiLin]YinLiLin left a comment (YinLiLin/CMplot#142)<#142 (comment)> May I please ask for your data to debug this issue? Thanks. ― Reply to this email directly, view it on GitHub<#142 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AT36NRWOJ2NWTDRQUXYUB5L2WNIETAVCNFSM6AAAAABZXUDWUWVHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDONJWGE4TQOJUGE>. You are receiving this because you authored the thread.Message ID: ***@***.***>

[YinLiLin]

I didn't see the attached file here, please re-send me the data to ylilin@163.com. Thanks.

[YinLiLin]

Sorry for the late response. The issue you proposed has been fixed in the version of 4.6.0, please source the online script from GitHub to have a try.