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文章 癌症缺氧相关基因查找,以及样本分类方法 ,免疫微环境

...rg/10.1186/s12967-020-02366-0    doi:10.1002/1878-0261.12747 To deduce the hypoxia status, an algorithm of t-distributed Stochastic Neighbor Embedding (t-SNE) was applied [19]. t-SNE, a nonparametric, unsupervised method, can divide or condense patients into several distinct clusters, based ...

文章 Infercnv|单细胞转录组拷贝数分析

...wnsample downsample] [--species species] [-t type] -g group [group ...] [--platform platform] [--hmm] [-o path] single cell trajectory analysis : http://cole-trapnell-lab.github.io/monocle- release/docs/#constructing-single-cell-trajectori...

文章 hmmsearch搜索蛋白保守结构域结果说明

...三对对于一些不可靠的结果差异会大一些,模糊区域; The domain hits table In protein search programs, the --domtblout option produces the domain hits table. There is one line for each domain. There may be more than one domain per sequence. The domain table has 22 whitespacedel...

问题 变异结果质控过滤,去掉低质量变异结果时报错i

...1.2.7 Warning: Expected at least 2 parts in FORMAT entry: ID=PGT,Number=1,Type=String,Description="Physical phasing haplotype information, describing how the alternate alleles are phased in relation to one another; will always be heterozygous and is not intended to describe called alleles"> War...

文章 植物嫁接砧木影响接穗代谢通路,激素等等总结

One hypothesis is that rootstock-induced vigour may be caused by signals such as water, nutrients, and especially hormones and nucleic acids that move through the graft union to affect scion growth. In support of this hypothesis, a significant number of mobile macromolecules can move through the vas...

问题 tassel报错,[Thread-9] ERROR net.maizegenetics.plugindef.AbstractPlugin - 0,软件运行有些表型数据时无问题,但大部分表型数据运行时出现该错误

...s: 1.0 includeTaxa: true taxaList: #此处省略 taxaNames: null Genotype Table Name: Datum_Filter Number of Taxa: 653 Number of Sites: 1936413 Sites x Taxa: 1264477689 Chromosomes... 1: start site: 0 (31071) last site: 136284 (43269699) total: 136285 2: start site: 136285 (9619) last si...

文章 TCGA临床数据下载—TCGAbiolinks

...CC", data.category = "Clinical", data.type = "Clinical Supplement", data.format = "BCR Biotab") GDCdownload(query) clinical.BCRtab.all <-GDCprepare(query) names(clinical.BCRtab.all) query <-GDCquery(project = "TCGA-ACC", ...

问题 bioconductor常用包 安装

...inghua.edu.cn/CRAN/bin/windows/contrib/3.6/BiocManager_1.30.10.zip'Content type 'application/zip' length 100430 bytes (98 KB)downloaded 98 KBpackage ‘BiocManager’ successfully unpacked and MD5 sums checkedThe downloaded binary packages are inC:\Users\Lenovo\AppData\Local\Temp\RtmpCikR6V\download...

问题 meme分析后显示error at: maxw

...gt;]name of positional priors file[-prior dirichlet|dmix|mega|megap|addone]type of prior to use[-b <b>]strength of the prior[-plib <plib>]name of Dirichlet prior file[-maxwords <maxwords>]maximum number of words to test as EM starts[-spfuzz <spfuzz>]fuzziness of sequence to t...

文章 相关性分析及热图绘制-脚本使用

...h[required] -m method, --method method input the type of method that calculates the correlation[optional,default pearson] --filter Whether to filter low expression genes[optional,default:False] -e exp, --exp e...

文章 全外显子测序疾病相关基因变异位点过滤标准及参考文献

... Genet Med 2015;17:578-86.  【2】VALENCIA, C. Alexander et al. CCEPAS: the creation and validation of a fast and sensitive clinical whole exome analysis pipeline based on gene and variant ranking. Journal of Translational Genetics and Genomics, [S.l.], v. 2, n. 1, p. 1, jan. 2018. ISSN 2578-528...

文章 DevOps 从理论到实践指南

...d the cultural change, specifically the collaboration of the various teams involved in software delivery (developers, operations, quality assurance, management, etc.), as well as automating the processes in software delivery.Continuous delivery, on the other hand, is an approach to automate the deli...

文章 蛋白质亚细胞定位method

...of secondary structure and subcellular localization of apple BES1 proteins The secondary structure of apple BES1 Proteins was analyzed with NPS@: SOPMA secondary structure prediction (https://www.predictprotein.org/signin). The subcellular localization prediction of apple BES1 proteins was identifie...

文章 植物单细胞转录组文章

...三种土壤条件,共测单细胞18个样本: scRNA-seq of 10 wild type (X.kitaake) grown in gel conditions, 2 wilde type grown in non-compacted soil conditions and 2 wild type grown in compacted soil conditions. scRNA-seq of 2 kitaake grown in gel conditions, 2 Kitaake grown in non-compacted...

文章 python版本MCScanX分析方法

...参考: Genomic synteny among C. annuum, C.chinenese and C.baccatum The genomes of C. annuum, C.chinenese and C.baccatum were retrieved from PGP (http://peppergenome.snu.ac.kr/download.php).The C. annuum genome was compared to C.chinenese and C.baccatum  genomes using the MCScan toolkit (V1....