找到约 15 条结果

问题 运行GDCprepare(query, save=FALSE)时错误

....category = "Transcriptome Profiling", +                   data.type = "Gene Expression Quantification",  +                   workflow.type = "STAR - Counts") > queryFt <- GDCquery(project = "TCGA-BRCA", +                   data.category = "Transcriptome Prof...

文章 BIOM 微生物数据格式及文件转换

...JSON格式 biom convert -i table.txt -o table.from_txt_json.biom --table-type="OTU table" --to-json biom convert -i table.txt -o table.from_txt_hdf5.biom --table-type="OTU table" --to-hdf5 转换biom为经典格式 biom convert -i table.biom -o table.from_biom.txt --to-tsv 转换biom为经典格...

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!

...开URL’https://cran.rstudio.com/src/contrib/WGCNA_1.69.tar.gz' Content type 'application/x-gzip' length 1168289 bytes (1.1 MB) ================================================== downloaded 1.1 MB * installing *source* package ‘WGCNA’ ... ** 成功将‘WGCNA’程序包解包并MD5和...

文章 seurat_sc_cluster.r 脚本使用帮助:

...d count file , csv or tsv format[ optional]  --sep sep             the field separator character for count file; Values                        on each line of thefile are separated by this                        character. If ‘sep = ""’ (the default for       ...

文章 地球上物种总数到底有多少??

...献及来源:Mora C, Tittensor D P, Adl S, et al. How Many Species Are There on Earth and in the Ocean?[J]. Plos Biology, 2011, 9(8):e1001127.Locey K J, Lennon J T. Scaling laws predict global microbial diversity[J]. Proceedings of the National Academy of Sciences of the United States of America, ...

问题 GWAS中gapit分析没有结果,命令行输入与屏幕输出如下

...vironment 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 Loading required package: BiocGenerics Attaching package: ‘BiocGenerics’ The...

问题 老师,您好!key driver analysis的参考文献如下。请您帮我查查该分析方法的R语言包在哪里下载?

Identification of Key Causal Regulators in Gene Networks . Bin Zhang and Jun Zhu .Proceedings of the World Congress on Engineering 2013 Vol II, .

文章 安装picrust2 保存:pkg_resources.DistributionNotFound: The 'cython' distribution was not found and is required by biom-format

...: All installation instructions are in more detail here. First, clone the repository and enter the directory: git clone https://github.com/picrust/picrust2.git cd Next, install the required dependencies listed here. Install PICRUSt2 into it's own environment using conda: conda env create...

文章 快速高效KM生存曲线绘制-脚本使用

... vs 女等)对患者生存造成的影响。 例如:2021年发表在The Journal for ImmunoTherapy of Cancer上的一篇影响因子为13.75的文献为例,该文献中运用KM生存曲线生动形象地展现了不同变量分别对患者生存的影响。 作者根据基因表达量和细...

问题 重测序circos运行失败

...rence/best_practices   The debugging facility is helpful to figure out what's happening under the   hood       http://www.circos.ca/documentation/tutorials/configuration/debugging   If you're still stumped, get support in the Circos Google Group.       http://groups.google.com/...

文章 转录组中Count, TPM,FPKM如何计算

...量获得的read count 数,是如何计算成TPM和FPKM的呢?参考《What the FPKM? A review of RNA-Seq expression units》这篇博客, 1. TPM 公式如下: 2. FPKM 公式如下: 3. TPM与FPKM的关系 对应的R 代码如下: countToTpm <- function(counts, effLen) { ...

文章 B/T细胞分类:

...an-cancer single-cell dissection reveals phenotypically distinct B cell subtypes. Cell, S0092-8674(24)00712-8. Advance online publication. https://doi.org/10.1016/j.cell.2024.06.038 (张泽民课题组描绘泛癌B细胞全景图) Tian, C., Zhang, Y., Tong, Y. et al. Single-cell RNA seque...

文章 微生物多样性分类柱状图按照分组进行排序脚本升级;tax_bar_plot.r

...(description='plot otu tax bar plot')parser$add_argument( "-i", "--input", type="character",required=T,help="input the abuance of tax in each sample,[required]",metavar="filepath")parser$add_argument( "-a", "--xlab", type="character",required=F, default="sample",help="input xlab [default sample]",me...

文章 R 包安装报错:configure: error: gdal-config not found or not executable.

... * removing ‘/share/work/biosoft/R/R-v3.6.1/lib64/R/library/adegenet’ The downloaded source packages are in ‘/tmp/RtmpuYCUHI/downloaded_packages’ Updating HTML index of packages in '.Library' Making 'packages.html' ... done Warning messages: 1: In install.packages("adegenet") : in...

问题 juicer 报错: Failure during chimera handling of

... 老师好,在运行juicer时报错: awk: calling undefined function and input record number 1116, file /home/data/t090519/JF/20.Jui/juicer/work/splits/JF2.fastq.gz.sam source line number 298***! Failure during chimera handling of /home/data/t090519/JF/20.Jui/juicer/work/splits/JF2.fastq.gz...