Cran motifmatchr
Webmotifmatchr 7 motifmatchr motifmatchr: Fast Motif Matching in R Description The motifmatchr package is designed for analyzing many sequences and many motifs to find which sequences contain which motifs. Details motifmatchr uses the MOODS C++ library (developedby Pasi Rastas, Janne Korhonen, and Petri Martinmaki) internally for motif … WebA rich hierarchy of matrix classes, including triangular, symmetric, and diagonal matrices, both dense and sparse and with pattern, logical and numeric entries. Numerous methods for and operations on these matrices, using 'LAPACK' and 'SuiteSparse' libraries.
Cran motifmatchr
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WebDescription. Quickly find motif matches for many motifs and many sequences. Wraps C++ code from the MOODS motif calling library, which was developed by Pasi Rastas, Janne … WebCRAN - Package ragg Anti-Grain Geometry (AGG) is a high-quality and high-performance 2D drawing library. The 'ragg' package provides a set of graphic devices based on AGG …
WebMethReg is an R package for integrative modeling of DNA methylation, target gene expression and transcription factor binding sites data, to systematically identify and rank functional CpG methylations. MethReg evaluates, prioritizes and annotates CpG sites with high regulatory potential using matched methylation and gene expression data, along ... WebIntroduction. motifmatchr is an R package for fast motif matching, using C++ code from the MOODS library. The MOODS library was developed by Pasi Rastas, Janne Korhonen, and Petri Martinmäki. The core C++ library from MOODs version MOODS 1.9.3 code has been included in this repository.
WebMar 27, 2024 · In ( Hao*, Hao* et al, Cell 2024 ), we introduce ‘weighted-nearest neighbor’ (WNN) analysis, an unsupervised framework to learn the relative utility of each data type in each cell, enabling an integrative analysis of multiple modalities. This vignette introduces the WNN workflow for the analysis of multimodal single-cell datasets. WebchromVAR. chromVAR is an R package for the analysis of sparse chromatin accessibility data from single cell or bulk ATAC or DNAse-seq data. The package aims to identify motifs or other genomic annotations associated with variability in chromatin accessibility between individual cells or samples. For a more detail overview of the method, please ...
WebThe motifmatchr package is designed for analyzing many sequences and many motifs to find which sequences contain which motifs. It uses the MOODS C++ library …
motifmatchr DOI: 10.18129/B9.bioc.motifmatchr Fast Motif Matching in R Bioconductor version: Release (3.16) Quickly find motif matches for many motifs and many sequences. Wraps C++ code from the MOODS motif calling library, which was developed by Pasi Rastas, Janne Korhonen, and Petri Martinmäki. artnews japanWebTools for motif analysis in multi-level networks. Multi-level networks combine multiple networks in one, e.g. social-ecological networks. Motifs are small configurations of nodes … art n tartan 2022Webmotifcluster . An R package for motif-based spectral clustering of weighted directed networks. Introduction. The motifcluster package provides implementations of motif … art obat adalahWebThe package motifmatchr can be used to find motifs within peaks. The matchMotifs method takes as inputs the motif lists described above, or your own list of motifs, and returns a (Ranged)SummarizedExperiment with a matrix indicating what peaks (rows) contain what motifs (columns). library(BSgenome.Hsapiens.UCSC.hg19) art oahuWebOct 27, 2024 · motifmatchr: Fast Motif Matching in R Quickly find motif matches for many motifs and many sequences. Wraps C++ code from the MOODS motif calling library, … art nouveau wikipediaWebchromVAR is an R package for the analysis of sparse chromatin accessibility. chromVAR takes as inputs aligned fragments (filtered for duplicates and low quality) from ATAC-seq or DNAse-seq experiments as well as genomic annotations such as motif positions. chromVAR computes for each annotation and each cell or sample a bias corrected ... artn tapWebJun 9, 2024 · Dear all, This is far from being the first time I run FindMarkers, but first time I encounter this problem. I run FindMarkers for 17 clusters using the default (wilcoxon) test - I run each cluster vs all. First 6 clusters have NAs for p ... art n tartan waipu 2021