问题 在运行core_pan_gene_curve.r的时候报错

...: ignoring environment value of R_HOME --> Q&A for bioinformatics, please visit the website: https://www.omicsclass.com/ --> R beginners ? I suggest your  learning  R language: https://study.omicsclass.com/index Attaching package: ‘dplyr’ The following objects are masked from...

问题 基因家族鉴定

老师您好，请问： The predicted genes were then manually checked using NCBI and UniPort online BLASTP, with threshold of E-value < 10-25. Identified genes were validated by aligning to a nonredundant gene dataset. Identified genes were also validated by BLAST searching against an EST dat...

问题 R脚本画相关性散点图时报错

...SE)))   } } metadata<-read.table(opt$meta,header = T,sep = "\t",check.names = F) x<-sample(1:7,1,replace = T) p<-ggplot(data = metadata,aes(x = metadata[,opt$cor_name],y = metadata[,opt$name]))+   geom_point(color = brewer.pal(7,"Set2")[x])+   stat_smooth(method = "lm",se ...

文章 cytoscape安装报错：No JVM could be found on your system

从cytoscape官网获取安装包，下载链接:https://cytoscape.org/download.html 我下载的cytoscape版本为3.10: 下载后解压安装发现如下报错： 怀疑是java版本的问题，使用cytoscape提供的环境自查脚本“windows.bat”，脚本这里下载： https://cytos...

文章 topGO报错

...         ## return NAs for the terms that are not found in the DB and make sure the 'names' attribute is as specified          shortNames <- shortNames[whichTerms]          names(shortNames) <- whichTerms                    return(shortNames)        }        .p...

问题 请教用gtf文件获取基因与mRNA的对应关系的问题

...成gff？有无针对gtf注释进行分析的脚本？ 附件说明： file1  gtf注释文件（部分） file2  用gffread命令转换格式后的gff3文件，无gene行 file3  上述格式转换后分析获得的mRNA2geneID文件 file4  手动修改gtf后的文件

问题 使用GATK的GenomicsDBImport合并gvcf导入db时报错Unexpected compressed block length: 1 for /work/GATK/BN14.g.vcf.gz

...02.111 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/share/work/biosoft/GATK/gatk-4.4.0.0/gatk-package-4.4.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so 10:53:02.155 INFO  GenomicsDBImport - ------------------------------------------------------------ 10:53...

问题 老师您好，我有些问题想请教您。我在Biolnux系统上安装MCScanX时，到使用make命令时就出现了错误，应该怎么办呢

文章 MySQL报错：ERROR 2002 (HY000): Can't connect to local MySQL server through socket '/tmp/mysql.sock'

...ecurity riskssymbolic-links=0[mysqld_safe]log-error=/var/log/mysqld.logpid-file=/var/run/mysqld/mysqld.pid 配置后：(配置 [client] 后，重启 mysql服务) [mysqld]datadir=/usr/local/mysql/databasedir=/usr/local/mysqlsocket=/var/lib/mysql/mysql.sock（跟这个socket路径一样）user=mysql...

问题 GSVA Error: useNames = NA is defunct. Instead, specify either useNames = TRUE or useNames = FALSE.

...and try?remotes::install_version("matrixStats", version="1.1.0") # restart your session and run previous scripts👍3

问题 你好，打扰了，想请教一下我是mac版R studio，安装WGCNA总报错，不太看得懂哪里出了问题，麻烦指导一下，急，谢谢！

...k' [-Wmissing-sysroot] corFunctions-utils.c:16:10: fatal error: 'stdio.h' file not found #include <stdio.h>          ^~~~~~~~~ 1 error generated. make: *** [corFunctions-utils.o] Error 1 ERROR: compilation failed for package ‘WGCNA’ * removing ‘/Library/Frameworks/R.framework...

文章 GWAS cFDR 多效基因分析

...a   fnbmd.lada=read.table("fnbmd.lada.cfdr.all.res.tsv",head=T,sep="\t",check.names = F) fnbmd.t1d=read.table("fnbmd.t1d.cfdr.all.res.tsv",head=T,sep="\t",check.names = F)  fnbmd.t1d=fnbmd.t1d[,c("id","FNBMD|T1D.cFDR",  "T1D|FNBMD.cFDR",  "FNBMD|T1D.ccFDR")] fnbmd.cfdr.res=inner_join(fnbmd....

文章 TCGA SNV 体细胞突变下载

...据结果maf.data <- GDCprepare(query )write.table(data.frame(maf.data,check.names = F), file ='maf.tsv', sep="\t",row.names =F, quote = F)####################################################################### maftools plot#######################################################################se...

问题 无法链接到docker守护进程

...ig version `1` has been deprecated and will be removed in containerd v2.0, please switch to version `2`, see https://github.com/containerd/containerd/blob/main/docs/PLUGINS.md#version-header" 然后我按照GitHub的导航操作了还是没解决这个报错，请问我改怎么解决这个问题...

问题 无法链接到docker守护进程

...ig version `1` has been deprecated and will be removed in containerd v2.0, please switch to version `2`, see https://github.com/containerd/containerd/blob/main/docs/PLUGINS.md#version-header" 然后我按照GitHub的导航操作了还是没解决这个报错，请问我改怎么解决这个问题...