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This package provides a package containing an environment representing the X_laevis_2.CDF file.
The Xeva package provides efficient and powerful functions for patient-drived xenograft (PDX) based pharmacogenomic data analysis. This package contains a set of functions to perform analysis of patient-derived xenograft data. This package was developed by the BHKLab, for further information please see our documentation.
Extra SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 144. The source data files used for this package were created by NCBI on May 30, 2015, and contain SNPs mapped to reference genome GRCh38.p2 (a patched version of GRCh38 that doesn't alter chromosomes 1-22, X, Y, MT). While the SNPlocs.Hsapiens.dbSNP144.GRCh38 package contains only molecular variations of class "snp", this package contains molecular variations of other classes (in-del, heterozygous, microsatellite, named-locus, no-variation, mixed, and multinucleotide-polymorphism).
Extra SNP locations and alleles for Homo sapiens extracted from NCBI dbSNP Build 144. The source data files used for this package were created by NCBI on May 29-30, 2015, and contain SNPs mapped to reference genome GRCh37.p13 (a patched version of GRCh37 that doesn't alter chromosomes 1-22, X, Y, MT). While the SNPlocs.Hsapiens.dbSNP144.GRCh37 package contains only molecular variations of class "snp", this package contains molecular variations of other classes (in-del, heterozygous, microsatellite, named-locus, no-variation, mixed, and multinucleotide-polymorphism).
This package provides data to use with xcore package.
Cross-hybridisation study on the ATH1 Affymetrix GeneChip.
This package provides a package containing an environment representing the Xenopus_laevis.cdf file.
xcore is an R package for transcription factor activity modeling based on known molecular signatures and user's gene expression data. Accompanying xcoredata package provides a collection of molecular signatures, constructed from publicly available ChiP-seq experiments. xcore use ridge regression to model changes in expression as a linear combination of molecular signatures and find their unknown activities. Obtained, estimates can be further tested for significance to select molecular signatures with the highest predicted effect on the observed expression changes.
This package was automatically created by package AnnotationForge version 1.11.21. The probe sequence data was obtained from http://www.affymetrix.com. The file name was Xenopus\_laevis\_probe\_tab.
XAItest is an R Package that identifies features using eXplainable AI (XAI) methods such as SHAP or LIME. This package allows users to compare these methods with traditional statistical tests like t-tests, empirical Bayes, and Fisher's test. Additionally, it includes simThresh, a system that enables the comparison of feature importance with p-values by incorporating calibrated simulated data.
The yeast genome data was retrieved from the sequence read archive, aligned with bwa, and converted to BAM format with samtools.
This package was automatically created by package AnnotationForge version 1.11.21. The probe sequence data was obtained from http://www.affymetrix.com. The file name was Yeast\_2\_probe\_tab.
This package provides a package containing an environment representing the Ye6100subB.CDF file.
This package provides a collection of so-called gold (and other) standard data sets.
ExpressionSet for Spellman et al. (1998) yeast cell cycle microarray experiment.
This package provides a package containing an environment representing the YG_S98.cdf file.
Affymetrix Affymetrix YG_S98 Array annotation data (chip ygs98) assembled using data from public repositories.
This package provides a package containing an environment representing the Yeast_2.cdf file.
This package provides a collection of different sets of experimental data from yeast.
This package was created by frmaTools version 1.19.3 and hgu133ahsentrezgcdf version 19.0.0.
This package provides a package containing an environment representing the Ye6100subD.CDF file.
This package provides a package containing an environment representing the Ye6100subA.CDF file.
This package provides a package containing an environment representing the Ye6100subC.CDF file.
This package provides a selection of RNA-Seq data from a yeast transcriptome experiment.