找到约 15 条结果

问题 下载甲基化数据时找不到样本类型，

...        platform = platform,+                       sample.type = sample_type)--------------------------------------o GDCquery: Searching in GDC database--------------------------------------Genome of reference: hg38|tissue.code |shortLetterCode |tissue.definition             ...

问题 老师，请问sample type出现这种情况怎么解决，麻烦老师解惑一下，谢谢啦。

...Methylation"> platform <- "Illumina Human Methylation 27"> sample_type <- "Primary solid Tumor" > legacy <- FALSE> # 设置工作目录（输出目录）> setwd(work_dir)> DataDirectory <- paste0(work_dir,"/GDC/",gsub("-","_",tcga_project))> FileNameData <- paste...

问题 16S 差异比较使用compare_errorbar.r的时候报错

...trieve the full column specification for this data. ℹ Specify the column types or set `show_col_types = FALSE` to quiet this message. Error in `select()`: ! Can't subset columns with `metaData[, 1, drop = T]`. ✖ Can't convert from `metaData[, 1, drop = T]` <double> to <integer> due t...

问题 blastp提示ensemble中提取的序列文件不对

...ameters due to an invalid query sequence or its translation. Please verify the query sequence(s) and/or filtering options 已去除序列中的终止子符号。 e.g： >ENST00000620518 ENSG00000081692  JMJD4 1:227732392-227735273(-) MDRETRALADSHFRGLGVDVPGVGQAPGRVAFVSEPGAFSYADFVRGFLLPNLPCVF...

文章 基因组组装GC 含量与深度图：

...lab.org/seurat/reference/dimplot')parser$add_argument( "-i", "--gc.table", type="character",required=T, default=NULL,help="input single Seurat obj in rds file [required]",metavar="filepath")parser$add_argument( "-d", "--depth.table", type="character",required=T, default=NULL,help="input single Seura...

文章 16S扩增子测序后的PICRUSt预测功能分析原理

...便快捷，成本也更低。 2016年发表在微生态学旗舰期刊《TheISME Journal》的《Cigarettesmoking and the oral microbiome in a large study of American adults》[2]中，作者就通过PICRUSt预测了吸烟人群和未吸烟人群的口腔菌群，发现共有83个基因功能代...

问题 成功安装WGCNA包后，调用时报错

....tuna.tsinghua.edu.cn/CRAN/bin/windows/contrib/3.5/WGCNA_1.66.zip' Content type 'application/zip' length 3436551 bytes (3.3 MB) downloaded 3.3 MBpackage ‘WGCNA’ successfully unpacked and MD5 sums checkedThe downloaded binary packages are in C:\Users\NY\AppData\Local\Temp\RtmpYrZpG5\downloaded_p...

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...

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 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....