Cetf package

Author: pylx

August undefined, 2024

WebMar 9, 2024 · Cole Pereira. Subscribe to MarketBeat All Access for the recommendation accuracy rating. Boost Target. $1.65 $2.25. (Data available from 3/10/2024 forward. … WebThis image provides a docker Rstudio interface for CeTF package in R, pointing to Bioconductor and GitHub repository The package provides the necessary instructions …

CeTF: an R/Bioconductor package for transcription factor …

WebPackage ‘CeTF’ March 24, 2024 Type Package Title Coexpression for Transcription Factors using Regulatory Impact Factors and Partial Correlation and Information Theory … WebCeTF package application, we analyzed gastric cancer RNA-seq data obtained from TCGA (The Cancer Genome Atlas) and found the HOXB3 gene as the second most relevant … peoples flowers on eubank

Bioconductor - CeTF

WebFeb 6, 2024 · This package provides the necessary functions for performing the Partial Correlation coefficient with Information Theory (PCIT) (Reverter and Chan 2008) and Regulatory Impact Factors (RIF) (Reverter et al. 2010) algorithm. The PCIT algorithm identifies meaningful correlations to define edges in a weighted network and can be … WebSource Package: CeTF_1.10.2.tar.gz: Windows Binary: CeTF_1.10.2.zip (64-bit only) macOS Binary (x86_64) CeTF_1.10.2.tgz: macOS Binary (arm64) CeTF_1.10.2.tgz: … WebTo demonstrate the CeTF package application, we analyzed gastric cancer RNA-seq data obtained from TCGA (The Cancer Genome Atlas) and found the HOXB3 gene as the second most relevant TFs with a ... to he who overcomes i will give

RIF: Regulatory Impact Factors (RIF) analysis in CeTF: Coexpression …

netGOTFPlot: Plot a network for Ontologies, genes and TFs in CeTF ...

WebFeb 6, 2024 · bivar.awk: Summary statistics from two variables CeTF-class: The CeTF Class CeTFdemo: CeTFdemo class object example CircosTargets: Circos plot for the Transcription Factors/genes targets. clustCoef: Calculate the clustering coefficient clustCoefPercentage: Calculate the clustering coefficient as a percentage densityPlot: … WebNov 1, 2016 · We investigated the relationship between ruminal pH and transcriptomic adaptation of the rumen epithelium (RE) of calves fed calf starter with and without forage during the weaning transition. Holstein calves were assigned to groups fed calf starter either with forage (HAY group, n = 3) or without f … to he who much is given much is requiredWebNov 25, 2024 · In CeTF: Coexpression for Transcription Factors using Regulatory Impact Factors and Partial Correlation and Information Theory analysis. Description Usage Arguments Value References Examples. View source: R/PCIT.R. Description. The PCIT algorithm is used for reconstruction of gene co-expression networks (GCN) that … to he whom much is given

"If the input data is a count table, data will be converted to TPM by each column (x) as follows: The mean for TPM values different than zero and the mean values for each gene are used as a threshold to filter the genes. Genes with values above half of the previous averages will be considered for subsequent analyses. … See more There are two options for differential analysis of the gene expression, the Reverter method [8] and DESeq2 [9]. In both methods, two conditions are required (i.e., control vs.tumor … See more The PCIT algorithm is also well described in the original paper from Reverter and Chan [6]. Moreover, it has been used for the reconstruction of Gene Co-expression Networks (GCN). The GCN combines the concept of the Partial … See more The RIF algorithm is well described in the original paper [7]. This step aims to identify critical Transcription Factors calculating for each condition the co-expression correlation between the TFs and the Differentially … See more There are 28 functions and 5 example datasets available in CeTF, which are described in Table 1. A working example for each of these functions is given in the package documentation in the Supplementary … See more " - Cetf package

CeTF: an R/Bioconductor package for transcription factor …

Bioconductor - CeTF

Cetf package

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