文章 R脚本报错|URL 'https://raw.githubusercontent.com/YinLiLin/R-CMplot/master/R/CMplot.r': Timeout of 60 seconds was reached

...时。 Error in file(filename, "r", encoding = encoding) :  cannot open the connection to 'https://raw.githubusercontent.com/YinLiLin/R-CMplot/master/R/CMplot.r'Calls: source -> fileIn addition: Warning message:In file(filename, "r", encoding = encoding) :  URL 'https://raw.githubusercontent.c...

文章 SCP FeatureDimPlot 报错

...= c("EPCAM", "KRT19", "PROM1", "ALDH1A1", "CD24"), + reduction = "UMAP", theme_use = "theme_blank" + ) Error in h(simpleError(msg, call)) : error in evaluating the argument 'x' in selecting a method for function 't': error in evaluating the argument 'x' in selecting a method for function 'as.ma...

问题 重测序中两个GATK运行都失败，显示如下代码和图片，麻烦老师进行解答

...oadinstitute/hellbender/Main has been compiled by a more recent version of the Java Runtime (class file version 61.0), this version of the Java Runtime only recognizes class file versions up to 55.0

问题 braker报错

... 16 17:02:31 2024: Did not find environment variable $AUGUSTUS_BIN_PATH (either variable does not exist, or the path given in variable does not exist). Will try to set this variable in a different way, later. # Tue Jan 16 17:02:31 2024: Trying to guess $AUGUSTUS_BIN_PATH from $AUGUSTUS_CONFIG_PATH....

文章 基因家族进化分析 发10分文章

..., Zhou, Y. and Jiao, Y. (2020), Evolutionary strategies drive a balance of the interacting gene products for the CBL and CIPK gene families. New Phytol, 226: 1506-1516. https://doi.org/10.1111/nph.164453. Yong-Chao Xu, Xiao-Min Niu, Xin-Xin Li, Wenrong He, Jia-Fu Chen, Yu-Pan Zou, Qiong Wu, Yon...

问题 vegan包问题请教

...m")   > png(file="spe.png",h=2000,w=2000,res=300) > plot(all, ci.type = "poly", col = "blue", lwd = 2, ci.lty = 0, +      ci.col = "lightblue", main = "Species Accumulation Curves", xlab = "Number of samples", +      ylab = "Number of  species") > boxplot(all, col = "yellow", ...

问题 vegan包问题请教

...andom")  > png(file="spe.png",h=2000,w=2000,res=300)> plot(all, ci.type = "poly", col = "blue", lwd = 2, ci.lty = 0,+      ci.col = "lightblue", main = "Species Accumulation Curves", xlab = "Number of samples",+      ylab = "Number of  species")> boxplot(all, col = "yellow", add = ...

文章 NCBI 中搜索某类基因蛋白序列技巧

...子序列： 题目：Genome-wide identification and characterization of the 14–3-3 family in Vitis vinifera L. during berry development and cold- and heat-stress response https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-018-4955-8 搜索方法演示： https://www.ncbi.nlm....

文章 正选择分析之 Site Models

...这两组比较进行LRT检验来验证正选择。不过Prof.Yang认为，The M1-M2 comparison 与 the M7- M8 comparison相比，更加的稳定。M7和M8俩模型计算时间会长一些，如果要进行分析的基因较多，可以考虑不比较 M7- M8。 如何检测positive sites？ 在C...

文章 ensembl和NCBI基因组下载，基因序列下载查看

...据库；拟南芥，TAIR是位于美国的拟南芥信息资源网站（The Arabidopsis Information Resource, TAIR）（http://www.arabidopsis.org/）；水稻的http://rice.plantbiology.msu.edu/等； 老师在确定参考基因组分析项目的时候，一定要指明自己所用的参考基...

文章 edger_analysis.r 差异基因分析edgeR

...] [optional, default: 1] -X x.lab, --x.lab x.lab the label for x axis [optional, default: log2FC] -Y y.lab, --y.lab y.lab the label for y axis [optional, default: -log10(FDR)] -T title, --title title the label for main tit...

文章 遗传图谱中各种作图群体介绍

...体 作图群体（Mapping population）是指population used for mapping the genes, 用于绘制基因图谱（或用来定位基因）的群体。作图群体是进行QTL（quantitative trait locus）定位的基础。 作图群体有很多类型，今天给大家介绍最常用的几种群体...

文章 1000G千人基因组计划人群缩写对照表

...AS 1 1 1 JPT Japanese in Tokyo, Japan EAS 1 1 1 CHS Southern Han Chinese EAS 1 1 1 CDX Chinese Dai in Xishuangbanna, China EAS 1 1 1 KHV Kinh in Ho Chi Minh City, Vietnam EAS 1 1 1 CEU Utah Residents (CEPH) with Northern and Western European Anc...

问题 number of analyzed snp 与 number of total SNPs/有什么区别

文章 胃癌免疫侵润预后Signature数据挖掘-糖酵解

...，最终：1,140 patients for analysis, including 337 patients from TCGA and 803 patients from GEO。糖酵解相关基因集：从Molecular Signatures Database v4.0数据库中筛选与糖酵解相关的基因集5个：BIOCARTA_GLYCOLYSIS_PATHWAY, GO_GLYCOLYTIC_PROCESS,HALLMARK_GLYCOLYSIS,KEGG_GLY...