上传数据到NCBI 进入上传网址: https://submit.ncbi.nlm.nih.gov/ 选择上传的数据库 Sequence Read Archive (SRA): 上传测序数据 GEO: 转录组或表观组数据(上传表达矩阵和测序数据) 填写项目和样本信息 上传数据 通过Fil ...

安装Jupyter和IPythonpip install ipythonpip install jupyter IPthon生成密码ipython 12from jupyter_server.auth import passwdpasswd() 配置Jupyterjupyter notebook ...

Perl安装模块 模块下载地址: https://metacpan.org/ 安装: perl Makefile.PL make make install 当出现问题Can’t locate xxx.pm in @INC时安装模块可以解决

References: https://yezhengstat.github.io/CUTTag_tutorial/ Alignment–Bowtie21234567891011121314151617# Build hg38 indexbowtie2-build GRCh38.p14.genome ...

References: http://biocluster.ucr.edu/~rkaundal/workshops/R_feb2016/ChIPseq/ChIPseq.html https://github.com/ENCODE-DCC/chip-seq-pipeline2 Quality C ...

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' ...

infercnvInstallationBiocManager::install("infercnv") Usage123456789101112131415161718192021222324252627library(infercnv)# Count matrixcounts ...

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 ...

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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 ...