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1.4k
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Comment: Comment: Pseudo-bulk Limma Approaches
18 months ago jma1991 ▴ 70
0
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1
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710
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Using controlAmbience with multiple samples and conditions
DropletUtils
updated 23 months ago by ★ 28k • written 23 months ago by ▴ 70
0
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4
replies
931
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Batch-corrected expression matrix NOT on a log2 scale
DESeq2 limma
updated 2.3 years ago by 3.9k • written 2.3 years ago by ▴ 70
0
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2
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1.2k
views
Error coercing LowRankMatrix to dgCMatrix
BiocSingular zellkonverter batchelor
updated 2.9 years ago by ▴ 50 • written 2.9 years ago by ▴ 70
0
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1
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891
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Comment: Comment: How to set aspect ratio and symmetric colour map in iSEE panels?
2.9 years ago jma1991 ▴ 70
2
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3
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891
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How to set aspect ratio and symmetric colour map in iSEE panels?
iSEE
updated 2.9 years ago by ▴ 320 • written 2.9 years ago by ▴ 70
0
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1
reply
844
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Assay choice for cell type annotation using SingleR when batch effect present in profile
SingleR MouseGastrulationData
updated 3.7 years ago by ★ 28k • written 3.7 years ago by ▴ 70
0
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0
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1.9k
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Comment: C: When to combine samples in the pre-processing of 10x scRNA-seq data?
4.6 years ago jma1991 ▴ 70
4
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2
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1.9k
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When to combine samples in the pre-processing of 10x scRNA-seq data?
10x scrna-seq
updated 4.6 years ago by ★ 28k • written 4.6 years ago by ▴ 70
1
vote
2
replies
753
views
In which order should you detect empty droplets / remove barcode swapping using DropletUtils?
dropletutils
updated 4.7 years ago by ▴ 20 • written 4.7 years ago by ▴ 70
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0
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1.2k
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Comment: C: Improve limma-voom trend fit to noisy data
6.0 years ago jma1991 ▴ 70
0
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1
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1.2k
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Comment: C: Improve limma-voom trend fit to noisy data
6.0 years ago jma1991 ▴ 70
0
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1
reply
1.2k
views
Comment: C: Improve limma-voom trend fit to noisy data
6.0 years ago jma1991 ▴ 70
4
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6
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1.2k
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Improve limma-voom trend fit to noisy data
limma voom
updated 6.0 years ago by ★ 28k • written 6.0 years ago by ▴ 70
0
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1
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1.6k
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Comment: C: POU5F1(OCT4) /ENTREZID: 5460 is not in the TxDb.Hsapiens.UCSC.hg19.knownGene
6.2 years ago jma1991 ▴ 70
0
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1
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1.6k
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Comment: C: POU5F1(OCT4) /ENTREZID: 5460 is not in the TxDb.Hsapiens.UCSC.hg19.knownGene
6.2 years ago jma1991 ▴ 70
1
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1
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1.6k
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Answer: A: POU5F1(OCT4) /ENTREZID: 5460 is not in the TxDb.Hsapiens.UCSC.hg19.knownGene
6.2 years ago jma1991 ▴ 70
0
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0
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2.2k
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Comment: C: Reads mistakenly being assigned to Unassigned_NoFeatures category when using fea
6.6 years ago jma1991 ▴ 70
3
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2
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2.2k
views
Reads mistakenly being assigned to Unassigned_NoFeatures category when using featureCounts
subread featurecounts
updated 6.6 years ago by ★ 3.5k • written 6.6 years ago by ▴ 70
0
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0
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2.5k
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Comment: C: strsplit method for DNAStringSet objects
6.7 years ago jma1991 ▴ 70
5
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4
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2.5k
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strsplit method for DNAStringSet objects
biostrings shortread
updated 6.7 years ago by 16k • written 6.7 years ago by ▴ 70
0
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0
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2.5k
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Comment: C: strsplit method for DNAStringSet objects
6.7 years ago jma1991 ▴ 70
0
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0
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919
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Data grouping with DataTrack or AlignmentTrack classes
gviz gviz-package
6.7 years ago jma1991 ▴ 70
3
votes
1
reply
1.4k
views
Hill in P-value distribution for heterogenous ChIP-seq samples
csaw limma sva qsmooth edger
updated 6.9 years ago by ★ 28k • written 6.9 years ago by ▴ 70
0
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0
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1.1k
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Comment: C: Integer overflow when tabulating read coverage
6.9 years ago jma1991 ▴ 70
2
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2
replies
1.1k
views
Integer overflow when tabulating read coverage
genomicalignments genomicranges
updated 6.9 years ago by 11k • written 6.9 years ago by ▴ 70
0
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0
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1.5k
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Comment: C: Calculate fraction of bases (GRanges) that have non-zero coverage (RleList)
6.9 years ago jma1991 ▴ 70
2
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4
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1.5k
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Calculate fraction of bases (GRanges) that have non-zero coverage (RleList)
genomicalignments genomicranges
6.9 years ago jma1991 ▴ 70
0
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1
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1.5k
views
Comment: C: Calculate fraction of bases (GRanges) that have non-zero coverage (RleList)
6.9 years ago jma1991 ▴ 70
0
votes
1
reply
937
views
Return features from a single strand using vmatchPattern
biostrings genomicranges
updated 7.0 years ago by 16k • written 7.0 years ago by ▴ 70
0
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0
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2.3k
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Comment: C: Memory-efficient method to calculate GC content of millions of GRanges
7.0 years ago jma1991 ▴ 70
0
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1
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2.3k
views
Comment: C: Memory-efficient method to calculate GC content of millions of GRanges
7.0 years ago jma1991 ▴ 70
6
votes
6
replies
2.3k
views
Memory-efficient method to calculate GC content of millions of GRanges
granges biostrings bsapply BSgenome
updated 7.1 years ago by 16k • written 7.1 years ago by ▴ 70
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