How to use exp_immu_cor_plot.r in R language
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Mapping Analysis of the relationship between exp_immu_cor_plot.r Gene expression and immune invasion
Usage: $Rscript. / scripts/exp_immu_cor_plot.r-husage:.. / scripts/exp_immu_cor_plot.r [- h]-e expset-I immu [- m method] [- an alternative] [- n ncol] [- l] [- x label.x.npc] [- Y label.y.npc] [- o outdir] [- H height] [- W width] scattor correlateion plot: https://www..com/article/1488optional arguments:-h -- help show this help message and exit-e expset,-- expset expset set event column name [required]-I immu,-- immu immu input data file path [required]-m method,-- method method a character string indicating which correlation coefficient (or covariance) is to be computed. One of "pearson", "kendall", or "spearman". [default pearson]-an alternative,-alternative alternative a character string specifying the alternative hypothesis, must be one of "two.sided", "greater" or "less". You can specify just the initial letter. [default two.sided]-n ncol,-ncol ncol column num [default [default 4]-l,-- log2 Whether to do log2 transformation of gene expression [default FALSE]-x label.x.npc,-- label.x.npc label.x.npc value should be between 0 and 1. Coordinates to be used for positioning the label Expressed in "normalized parent coordinates". [default 0]-y label.y.npc,-- label.y.npc label.y.npc value should be between 0 and 1. Coordinates to be used for positioning the label, expressed in "normalized parent coordinates". [default 1]-o outdir,-- outdir outdir output file directory [default cwd]-H height,-- height height the height of pic inches [default 5]-W width,-- width width the width of pic inches [default 10] use examples:
Rscript. / scripts/exp_immu_cor_plot.r-e gene_exp1.tsv-I.. / 03.TIME/immu/timer.res.tsv-o timer_cor1-- log2
Parameter description:
-e specify the expression of the specified gene, behavior gene, and list it as the sample name
IDTCGA-D7-A74A-01A-11R-A32D-31TCGA-BR-7704-01A-11R-2055-13TCGA-VQ-A91N-01A-11R-A414-31TCGA-CD-A4MH-01A-11R-A251-31NUP5018.6550531.5923228.2338228.76485CXCR464.85805125.12356.3524469.98976NT5E111.481869.858779.3738225.05824EFNA38.24785742.0330843.4643226.66024STC14.78111121.3632740.8107719.51568ZBTB7A95.51678103.4768158.3024126.2677CLDN91.1874562.4761380.3660817.347344
-I enter the immune invasion result of the sample. Note that the script will automatically intersect the samples in the two files.
Cell_typeTCGA-B7-A5TK-01A-12R-A36D-31TCGA-BR-7959-01A-11R-2343-13TCGA-IN-8462-01A-11R-2343-13TCGA-BR-A4CR-01A-11R-A24K-31B cell00.0131597420.0009075070.020234T cell CD4+00.1148827970.1180611510.152274T cell CD8+0.7711217670.1307983490.0489647120.005392Neutrophil0.226927920.1251947360.1065623430.057013Macrophage00.21336535800.05444Myeloid dendritic cell0.9356441910.4578443990.4047748130.296719 is the content of this article on "how to use exp_immu_cor_plot.r in R language". I believe we all have a certain understanding. I hope the content shared by the editor will be helpful to you. If you want to know more about the relevant knowledge, please pay attention to the industry information channel.
