DESeq2差异表达分析 | Omics | Transcriptome tximport导入表达定量文件获取转录本ID所对应的基因Id1234library(GenomicFeatures)txd <- makeTxDbFromGFF(file='gencode.v44.annotation.gtf',format='gtf' ...
Read more Single cell CNVs analysis | Omics | Single cell infercnvInstallationBiocManager::install("infercnv")
Usage123456789101112131415161718192021222324252627library(infercnv)# Count matrixcounts ...
Read more IGV deployment | Omics | Genome IGV webappDownload IGVhttps://igv.org/app-archive/
Create data directorymkdir -p igv-webapp.2.13.5/resources/data (Put the data into this folder)
Star ...
Read more Allele specific CNVs analysis | Omics | Genome Here's something encrypted, password is required to continue reading.
Read more 转录组表达定量分析 | Omics | Transcriptome 基于bamStar比对构建索引123456STAR --runMode genomeGenerate \--genomeDir /opt/hg38/index \--genomeFastaFiles /opt/hg38/ref/GRCh38.p14.genome.fa \--sjdbGTFfile ...
Read more Cancer intervention summary | Cancer Here's something encrypted, password is required to continue reading.
Read more 胶质细胞markers | Omics | Single cell Here's something encrypted, password is required to continue reading.
Read more Seurat对象操作 | Omics | Single cell Seurat对象
查看seurat对象的结构: str(object)
seurat对象的元信息: object@meta.data
指定使用的idents: Idents(object) <- "seurat_clusters"
指定使用的assay: DefaultAs ...
Read more R之tidyverse包使用 | R 数据读取123library(magrittr)library(tidyverse)data <- readr::read_tsv("test.tsv") %>% as.data.frame() # %>%为管道操作符
合并数据123456789# 左连接 ( ...
Read more Seurat空间转录组分析流程 | Omics | Spatial transcriptome Load 10X visium data123456789101112library(Seurat)library(ggplot2)library(patchwork)# dataDir contains spatial dir and filtered_feature_bc_matrix.h5# ...
Read more 