WebFeb 4, 2024 · Downsampling on the reads Given multiple batches of very different sequencing depths, it can be beneficial to downsample the deepest batches to match … WebIn any case, it would help if you did debug (downsampleReads) and stepped through the function to locate where the error arises. Once you get into C-level errors, the cause …
downsampleMatrix: Downsample a count matrix in LTLA/scuttle: …
WebDec 19, 2024 · downsampleReads in the DropletUtils package, which downsamples reads rather than observed counts. normalizeCounts, where downsampling can be used as an alternative to scaling normalization. Examples scuttle documentation built on Dec. 19, 2024, 2 a.m. Related to downsampleMatrix in scuttle ... scuttle index Single-cell RNA-seq … WebOct 10, 2024 · downsampleMatrix/downsampleReads and Seurat normalisation #24 Closed lucygarner opened this issue on Oct 10, 2024 · 7 comments lucygarner on Oct … internship definitie
barcodeRanks: Calculate barcode ranks in DropletUtils: Utilities for ...
Weblibrary (DropletUtils) help (downsampleReads) Run (Ctrl-Enter) Any scripts or data that you put into this service are public. DropletUtils documentation built on Feb. 4, 2024, 2:01 a.m. R Package Documentation rdrr.io home R language documentation Run R code online CRAN packages Bioconductor packages R-Forge packages GitHub packages Web6 downsampleReads cells that have similar total counts across batches, for which downsampling on the UMI counts is a more direct approach. Note that this function was originally implemented in the scater package as downsampleCounts. Value A numeric matrix of downsampled counts, of the same type as x. Author(s) Aaron Lun See Also … WebbarcodeRanks: Calculate barcode ranks chimericDrops: Remove chimeric molecules controlAmbience: Ambient contribution from controls defaultDrops: Call cells from number of UMIs downsampleReads: Downsample reads in a 10X Genomics dataset emptyDrops: Identify empty droplets encodeSequences: Encode nucleotide sequences … internship declaration