文章 network.r绘制网络图并输出最大子图节点及网络图

...exit -e filepath, --edge filepath input the edge information of network,[required] -v filepath, --vertex filepath input the vertex information of network,[required] -f from, --from from the name of the start gene column [required] -t to, --to ...

问题 我买了转录组分析的课程，在运行fpkm_and_plot.R脚本时提示Error in library("getopt") : there is no package called ‘getopt’ Execution halted， 我打开R语言安装getopt后仍然显示报错，请教各位大神和组学讲堂的老师

文章 bedtools批量提取基因组指定位置序列

... will be reverse complemented.                - By default, strand information is ignored.        -fullHeader     Use full fasta header.                - By default, only the word before the first space or tab is used. 其中-fi 指定基因组fasta文件，-bed 指定要提...

文章 z-Transform数据得到z-score方法公式

...le observationsxi ... original values of the sample... sample means ... standard deviation of the sample The z-transform is also called standardization or auto-scaling. z-Scores become comparable by measuring the observations in multiples of the standard deviation of that sample. The mean o...

问题 成功安装WGCNA包后，调用时报错

... 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_packages installing the source package ‘GO.db’trying URL 'https://bioconductor.org/packages/3.8/data/annotati...

文章 rocks7 SGE任务管理配置

...mputing clusters today. Users should use use qmon (configure SGE by GUI) and qconf (configure SEG by command line) to configure SGE.Detailed ReferenceThe more authorative and comprehensive reference is http://gridscheduler.sourceforge.net/htmlman/htmlman1/qstat.html and http://gridscheduler.s...

文章 stacks RAD 分析方法

...carding reads of low quality (-q), removing reads with uncalled bases (-c) and rescuing barcodes and radtags (-r). SNP calling for each individual was done using the program denovo_map.pl of Stacks. The denovo_map.pl included six core components: building loci (ustacks), creating a catalog of lo...

文章 immune_infiltrates_rnaseq.r RNA-seq 转录组数据免疫侵润分析

... “In a certain patient, there are more B cells than T cells”. For more information, see our Benchmark paper (Sturm et al. (2019)).Methods that allow between-sample comparisonsMCP-counter xCell TIMERMethods that allow between-cell-type comparisionsCIBERSORTMethods that allow bothEPIC quanTIseq ...

文章 影响GWAS关联分析好坏的因素

...cs, 2012, 44(7): 803-807 4.Yu J, Buckler E S. Genetic association mapping and genome organization of maize[J]. Current Opinion in Biotechnology, 2006, 17(2):155–160. 5.Mcmullen M D, Stephen K, Hector Sanchez V, et al. Genetic Properties of the Maize Nested Association Mapping Population[J]. Scie...

问题 您这里的课程筛选串联重复基因的标准是参照这篇文献的extent of gene duplication in the genomes of Drosophila,nematode ,and yeast(2002). Mol Biol Evol。 这篇文献是用的果蝇，线虫，和酵母菌的，可我做的是植物，我还可以用这种方法吗

文章 生信挖掘GEO+TCGA 文献速览

“AKAP12 and RNF11 as Diagnostic Markers of Fibromyalgia and Their Correlation with Immune Infiltration”，这篇文章于2022年10月4日发表在Oxid Med Cell Longev期刊上，影响因子为7.31。纤维肌痛（FM）是一种慢性非关节风湿性疾病，主要特征为弥漫性播散性...

问题 在docker中用cleandata与宿主序列比对得到sam文件这一步出现错误，

...ie2 --threads 6 \ -x $host_index/Canis_lupus/wolf \ -1 $workdir/1.host_del_and_qc/cleandata/${i}_1.fastq \ -2 $workdir/1.host_del_and_qc/cleandata/${i}_2.fastq \ -S $workdir/1.host_del_and_qc/cleandata/${i}.bowtie.sam \ --very-sensitive-local \ 2>$workdir/1.host_del_and_qc/cleandata/${i}.bowtie.m...

文章 1000G千人基因组计划人群缩写对照表

...City, Vietnam EAS 1 1 1 CEU Utah Residents (CEPH) with Northern and Western European Ancestry EUR 1 1 1 TSI Toscani in Italia EUR 1 1 1 FIN Finnish in Finland EUR 1 1 1 GBR British in England and Scotland EUR 1 1 1 IBS Iberian Population in Sp...

问题 Picard sortsam排序

...Picard's command line syntax is changing. ********** ********** For more information, please see: ********** https://github.com/broadinstitute/picard/wiki/Command-Line-Syntax-Transition-For-Users-(Pre-Transition) ********** ********** The command line looks like this in the new syntax:

问题 qiime2 v1.4版，用data2生成特征表时出错，应该怎么解决？ Plugin error from dada2: An error was encountered while running DADA2 in R (return code 1), please inspect stdout and stderr to learn more. Debug info has been s