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This article mainly explains "how to use heatmap_group_plot.r in R language". Interested friends may wish to have a look at it. The method introduced in this paper is simple, fast and practical. Let's let the editor take you to learn how to use heatmap_group_plot.r in R language.

Heatmap_group_plot.r grouping thermograph shows the result of immune invasion.

Description of using parameters:

$Rscript heatmap_group_plot.r-husage: heatmap_group_plot.r [- h]-I filepath-m filepath-g group [group...] [- l filepath] [- t topnumber] [--scale SCALE] [--log2] [--cluster_rows] [--cluster_cols] [--show_rownames] [--show_colnames] [- c color [color...]] [- o outdir] [- p prefix] [- H height] [- W width] plot heatmapoptional arguments:-h -- help show this help message and exit-I filepath,-- input filepath input the immune res data, [required]-m filepath,-- metadata filepath input metadata filepath [required]-g group [group...],-- group group [group...] Input group id in metadata file, can set multi groups [required]-l filepath,-- genelist filepath genelist file to keep [default NULL]-t topnumber -- top topnumber The top var to plot [default NULL]-- scale SCALE character indicating if the values should be centered and scaled in either the row direction or the column direction, or none. Corresponding values are "row", "column" and "none" [default= "row"]-log2 whether do log2 transfrom [optional, default: False]-cluster_rows whether cluster_rows [optional, default: False]-cluster_cols whether cluster_cols [optional, default: False]-show_rownames whether show_rownames [optional, default: False]-show_colnames whether show_colnames [optional Default: False]-c color [color...],-- color color [color...] Color map of heatmap, give three color [default=c ('blue',' white', 'red')-o outdir,-- outdir outdir output file directory [default cwd]-p prefix,-- prefix prefix out file name prefix [default demo]-H height,-- height height the height of pic inches [default 9]-W width -- width width the width of pic inches [default 10]

Note:

Do not have a na value in the sample grouping metadata file, otherwise an error will be reported:

Error in names (ann_colors [[opt$ group [I])

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