RNAseqCNV在调用ALL数据集中的cnv方面优于其他基于RNA-seq的算法,特别是在具有高比例cnv的样本中。CNV与基于DNA的CNV结果高度一致,比传统的基于细胞遗传学的核型更可靠。RNAseqCNV提供了一种在没有DNA分析的情况下稳健识别拷贝数变化的方法,进一步增强了RNA-seq对ALL亚型的分类能力。 软件包安装 # install devtools ...
Here we describe RNAseqCNV, a method to detect large scale CNVs from RNA-seq data. We used models based on normalized gene expression and minor allele frequency to classify arm level CNVs with high accuracy in ALL (99.1% overall and 98.3% for non-diploid chromosome arms, respectively), and...
Docker image based on rocker/rstudio with RNAseqCNV was also created to facilitate easy deployment:https://hub.docker.com/repository/docker/honzik1/rnaseqcnv. To use the image, docker needs to be installed. For more information on docker, please head to:https://www.docker.com/. The rstud...
Circadian Gene Selection for Time-to-event Phenotype by Integrating CNV and RNAseq DataBayesian survival regressionBayesian hierarchical modelingBreast cancerCircadian genesData integrationGene selectionGlobal local shrinkage priorTCGABackground The endoge/nous circadian clock, which controls daily rhythms in ...
In this work, a comparison of fusion methodologies (early and intermediate) using RNA-Seq and Copy Number Variation data for Non-Small-Cell Lung Cancer classification is performed. We found that great results can be attained using both fusion methodologies, with an AUC of 0.984 for the early ...
Haplotype-aware CNV analysis from single-cell RNA-seq kharchenkolab.github.io/numbat/ Topics cancer-genomics single-cell phylogeny single-cell-rna-seq single-cell-analysis cnv-detection spatial-transcriptomics lineage-tracing Resources Readme License View license Activity Custom properties Stars...
Inferring CNV from Single-Cell RNA-Seq. Contribute to broadinstitute/infercnv development by creating an account on GitHub.
Visit project wiki for InferCNV documentation.About Inferring CNV from Single-Cell RNA-Seq Resources Readme License View license Stars 0 stars Watchers 0 watching Forks 137 forks Releases No releases published Packages No packages published Languages R 98.3% Python 1.1% Other 0.6% Footer...
Inferring CNV from Single-Cell RNA-Seq. Contribute to tu-jihao/infercnv development by creating an account on GitHub.
docker run -it -p 8787:8787 -v /local/path/to/needed/directory/:/where/the/directory/will/be/mounted/ -e PASSWORD=1234 honzik1/rnaseqcnv:0.0.4 Users can then find the running Rstudio session in browser under: http://localhost:8787/. The login would be rstudio and password 1234. ...