how to create heat map using ggplot2 in R?

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3.3 years ago

laibakhalid3090 • 0

I have .Rtab data in which have 5 columns and 4311 rows...how to set them all on the axes? please help

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ADD COMMENT • link updated 3.3 years ago by ATpoint 85k • written 3.3 years ago by laibakhalid3090 • 0

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Please find the ggplot2 heat map demo. pheatmap is also a very good option for heatmap generation in R. However, 4311 rows is a very high number and you can set top 50/100 to show in heatmap.

ADD REPLY • link 3.3 years ago by MSRS ▴ 590

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but how I will set, I have to create heat map on entire data

ADD REPLY • link 3.3 years ago by laibakhalid3090 • 0

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Though ggplot can output heatmap, but please consider using dedicated libraries such as complexheatmap, pheatmap etc.

ADD REPLY • link 3.3 years ago by cpad0112 21k

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There are really plenty of posts on heatmapping. For pure ggplot2 try e.g. https://github.com/XiaoLuo-boy/ggheatmap. Another package beyond those mentioned already would be ComplexHeatmap.

ADD REPLY • link 3.3 years ago by ATpoint 85k

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yes I have to first extract data.... how I will extract accessory genome from core using excel? guide please

ADD REPLY • link 3.3 years ago by laibakhalid3090 • 0

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Look, we can neither see your screen, nor do you provide any information on how your data look. This question cannot be answered. Please show some effort and add suitable example data.

ADD REPLY • link 3.3 years ago by ATpoint 85k

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