# Month: August 2020

## Line graph with different percentages of methylation on chromosomes for different disease types

Introduction Through the line graph, the author showed that different types of prostate cancer have different methylation patterns. On ChrX,

## ggplot box plot plus p value

Introduction When ggplot is making box plots or dot plots, it can actually check and add p-values, just use the

## Bar graph of the relationship between the amount of DNA methylation valleys and H3K4me3 and H3K27me3

Introduction DNA methylation valleys (DNA methylation valleys, DMV) are a wide range of hypomethylated regions, which are related to the

## Calculation of dysfunction score in TIDE

Introduction The TIDE score calculated by the TIDE software consists of two parts: dysfunction score and exclusion score. The calculation

## use ggplot to passe in the drawing parameters in the form of variables

Introduction Sometimes we need to use a loop to draw multiple ggplot graphs, we fixed x, and y needs to

## Boxplot boxplot of the difference of HMR between Non-CMP and CMP group

# Data processing n_hmr = rep(0, 100) for(i in 1:length(sample_ids_wgbs)){ n_hmr[i] = length( hmr[[ sample_ids_wgbs[i] ]] ) } m =

## Heat map of sample mutation information plus methylation

The part of the heat map function written by the author himself can be called directly after drawing # Plots

## How to draw multiple images into one image in R language

Introduction Sometimes we need to arrange multiple images on a picture. For the functions of the R language basic package,

## Two methods of data normalization

Why normalization When we draw heat maps, linear regression, neural networks, etc., we often need to normalize the data first.

## A bar graph comparing the number of hypomethylated regions of the sample with the number of intersections of CpG islands, mutation load, and number of SVs

Legend   A summary of the HMR (hypomethylation region) frequency of 100 independent mCRPC samples and the sample level of somatic