Maize Inflorescence
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Heatmap

 Information

Give a list of gene ids, this tool generates heatmap using the R method heatmap(). To generate a heatmap, the distance matrix is generated using R method dist() and hierarchical cluster analysis is performed using R method hclust().

 Data

Experiments in ramosa series

Experiment Label
Ear wild-type 1mmear.wt.1mm
Ear ramosa1 1mmear.ra1.1mm
Ear ramosa2 1mmear.ra2.1mm
Ear ramosa3 1mmear.ra3.1mm
Ear wild-type 2mmear.wt.2mm
Ear ramosa1 2mmear.ra1.2mm
Ear ramosa2 2mmear.ra2.2mm
Ear ramosa3 2mmear.ra3.2mm

Experiments in ear and tassel development series

Experiment Label
Tip of the earear.tip
Middle of the earear.mid
Base of the earear.base
Tassel at Stage 1tassel.stg1
Tassel at Stage 2tassel.stg2
Tassel at Stage 3tassel.stg3

Experiments in fasciated ear (fea4)

Experiment Label
Wild type ear at 2mmwt.2mm.ear
Fasciated ear at 2mmfea4.2mm.ear

Experiments in knotted1

Experiment Label
Wild type ear 2-5 mmwt.ear.2to5mm
Knotted1 ear 2-5 mmkn1.ear.2to5mm
Wild type tassel 2-5 mmwt.tassel.2to5mm
Knotted1 tassel 2-5 mmkn1.tassel.2to5mm

 Instructions

Steps to follow

  • Select the desired experiments using checkbox
  • Enter a list of gene ids in the box labeled Gene list or use the example list of gene ids that are already present in the box.
  • From the dropdown menu labeled Hierarchical cluster analysis, select the agglomeration method for hierarchical cluster analysis, the default is 'average'.
  • From the dropdown menu labeled Distance measurement, select the distance measure to generate the distance matrix, the default is 'euclidean'.
  • Wait for the page to load the image of the heatmap

Filter by Experiments:

ear and tassel development series [select all]

ramosa series [unselect all]

fasciated ear4 (fea4) experiment [unselect all]

knotted1 [unselect all]

nod (in RPM) [select all]

Gene list:

Hierarchical cluster analysis:

Distance measurement: