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Created An Answer That Has Been Accepted
Awarded 5048 times (see all awards). Earned by the
following contributors:
8 months ago
The city by the bay
Answer: Bluster and Varieties of Louvain Clulstering
2 years, 2 months ago
The city by the bay
Answer: Efficiently working with HDF5-backed SingleCellExperiments
2 years, 3 months ago
The city by the bay
Answer: how to do downstram analysis to cells which are subsetted after MNN batch-correc
3 years, 2 months ago
The city by the bay
Answer: Does MNN removes same average batch vector from all cells or each cell has it's
3 years, 4 months ago
The city by the bay
Answer: diffHic's totalCounts fails with multiple files, but rest of test code works
3 years, 5 months ago
The city by the bay
Answer: scater::calculatePCA error when using BPPARAM = MulticoreParam
3 years, 6 months ago
The city by the bay
Answer: barcodeRanks unusual warning "In smooth.spline(x[new.keep], y[new.keep], df = df
3 years, 6 months ago
The city by the bay
Answer: Effect of feature number on adjusted p-values
3 years, 7 months ago
The city by the bay
Answer: Should we apply DropletUtils on control case separately or on a common sce objec
3 years, 7 months ago
The city by the bay
Answer: How to apply limma-trend or voom to batch corrected single cell data? (non-integ
3 years, 9 months ago
The city by the bay
Answer: DE Analysis on Scran-Normalized Counts
3 years, 10 months ago
The city by the bay
Answer: Merging only those samples sequenced over multiple batches - scRNA-seq
4 years, 1 month ago
The city by the bay
Answer: scran::computeSumFactors with single-cell ATAC-seq data
4 years, 3 months ago
The city by the bay
A: multiBatchNorm vs. calculateSumFactors on concatenated dataset
4 years, 3 months ago
The city by the bay
A: Cell cycle regression for scRNA-seq data
4 years, 4 months ago
The city by the bay
A: scRNA-seq pseudo-bulk differential expression analysis with pseudobulkDGE()
4 years, 5 months ago
The city by the bay
A: Question: Method to get normalize allele specific read counts
4 years, 6 months ago
The city by the bay
A: Carry over variable features when converting FastMNN SCE object to Seurat object
4 years, 6 months ago
The city by the bay
A: Removing cell cycle genes in large data set integration
4 years, 6 months ago
The city by the bay
A: Output lfc for Wilcox-based findMarkers
4 years, 7 months ago
The city by the bay
A: Optimal cluster number identification using buildSNNgraph and igraph clusters
4 years, 7 months ago
The city by the bay
A: Best practice for correlating scRNA seq to bulkRNA seq data
4 years, 7 months ago
The city by the bay
A: MNN batch correction of pre-computed PCA
4 years, 9 months ago
The city by the bay
A: Bias towards significantly negative logFCs in ATAC-Seq differential chromatin op
4 years, 10 months ago
The city by the bay
A: fastMNN based correction for large multi-run experiment requires a similar popul
4 years, 10 months ago
The city by the bay
A: scRNA-seq analysis : the IDENTITY of the CLUSTERS across MULTIPLE EXPERIMENTS
5 years, 1 month ago
The city by the bay
A: Bug in estimateDisp of "edgeR"? "weights' matched by multiple actual arguments
5 years, 2 months ago
The city by the bay
A: Stouffer's method weights in scran::pairwiseWilcox
5 years, 3 months ago
The city by the bay
A: Correct use of TMM / normalization factors based on large bins
5 years, 3 months ago
The city by the bay
A: emptyDrops identified less non-empty cells with lower total UMI counts?
5 years, 3 months ago
The city by the bay
A: scran: excluding genes with extremely high expression during normalization?
5 years, 3 months ago
The city by the bay
A: Feature selection across batches in simpleSingleCell when spike-ins are not avai
5 years, 3 months ago
The city by the bay
A: Feature selection across batches in simpleSingleCell "Correcting batch effects"
5 years, 3 months ago
The city by the bay
scater::runPCA() errors on DelayedMatrix (DelayedArray:::.check_Ops_vector_arg_length)
5 years, 3 months ago
The city by the bay
scran: excluding genes with extremely high expression during normalization?
5 years, 3 months ago
The city by the bay
Time course experiment using limma with voom
5 years, 3 months ago
The city by the bay
How to identify real cells in 10X RNA-seq ?
5 years, 3 months ago
The city by the bay
Time course experiment using limma with voom
5 years, 4 months ago
The city by the bay
scater::runPCA() errors on DelayedMatrix (DelayedArray:::.check_Ops_vector_arg_length)
5 years, 4 months ago
The city by the bay
scater::runPCA() errors on DelayedMatrix (DelayedArray:::.check_Ops_vector_arg_length)
5 years, 4 months ago
The city by the bay
scater::runPCA() errors on DelayedMatrix (DelayedArray:::.check_Ops_vector_arg_length)
5 years, 4 months ago
The city by the bay
A: using limma and edgeR for differential expression of Drop-seq/10xGenomics scRNA-
5 years, 4 months ago
The city by the bay
scater::runPCA() errors on DelayedMatrix (DelayedArray:::.check_Ops_vector_arg_length)
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