WebSome of these include Cellranger, Seurat, Scanpy, etc., for sc-transcriptome-seq analysis [25], chromVar, Signac, scABC, etc., for sc-epigenome-seq analysis [26], and Monovar, SCIΦ, etc., for sc ... WebMar 31, 2024 · The matrices obtained were further analyzed using Signac/Seurat (Hao et al., 2024), Chromvar (Schep et al., 2024) and Monocle (Cao et al., 2024; Trapnell et al., 2014). Contributor(s) Li R, Liu J, Yi P, Yang X, Hou S: Citation missing: Has this study been published? Please login to update or notify GEO.
executing runChromVar() and FindMotifs() · Issue #9 · …
WebAug 21, 2024 · For unimodal data input, Destin2 utilizes Signac (Stuart et al., 2024), MAESTRO , and chromVAR (Schep et al., 2024) for preprocessing and generating the … WebAug 16, 2024 · Craig Conover has certainly had his share of issues. When we were first introduced to Conover, he was touting himself as a lawyer. But by season three, his … how did covid spread so easily
Open science in scRNA-seq tools development. A GitHub summary...
WebchromVAR 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 … WebDec 8, 2024 · Signac 1.4.0 New functionality: Added ability to display multiple assays in CoveragePlot (). The assay parameter can now be a list of assays to plot data from, with signal colored by assay of origin. Bug fixes: Fixed bug in FindMotifs () when using only one region as input ( #732) Add check for correct number of columns in fragment file ( #748) WebJul 20, 2024 · Compute chromVAR deviations for groups of peaks. The goal of this function is similar to that of AddModuleScore except that it is designed for single-cell chromatin data. The chromVAR devia-tions for each group of peaks will be added to the object metadata. Usage AddChromatinModule(object, features, genome, assay = NULL, verbose = TRUE ... how many seasons of bosch were filmed