Showing : colData • reset
0
votes
6
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1.1k
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Once again a "Model matrix not full rank"
DESeq2 design coldata
updated 18 months ago by ★ 1.4k • written 18 months ago by ▴ 130
0
votes
2
replies
1.3k
views
Heat Map
ColData pheatmap DESeq2
written 2.4 years ago by • 0
0
votes
1
reply
2.1k
views
Rename colData column
SingleCellExperiment colData rename
updated 2.7 years ago by ▴ 780 • written 2.7 years ago by ▴ 10
1
vote
0
replies
920
views
Understanding ColData in BiSeq
BiSeq Coldata
5.4 years ago akhaira • 0
2
votes
2
replies
2.3k
views
How to extract factor levels of coldata from deseq object?
deseq2 levels factor colData
updated 6.7 years ago by 43k • written 6.7 years ago by ▴ 20
4
votes
8
replies
50k
views
What is colData? How do I make one?
deseq2 coldata
updated 7.0 years ago by ★ 1.4k • written 7.0 years ago by ▴ 10
1
vote
7
replies
4.3k
views
Data from ##SAMPLE lines in VCF?
variantannotation coldata
updated 7.1 years ago by ★ 6.8k • written 7.1 years ago by ▴ 10
0
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8
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4.8k
views
DESeq2: handling NA values in colData
deseq2 coldata NA
updated 15 months ago by 43k • written 7.3 years ago by ▴ 170
0
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3
replies
2.0k
views
How to create the colData for a complex experiment
multiassayexperiment colData
updated 7.9 years ago by ★ 1.1k • written 7.9 years ago by ▴ 760
9 results • Page 1 of 1
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Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot by Kevin Blighe ★ 4.0k
Hi bioinffun, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to …
Answer: gene Set with high AUC score but no cells assigned to cell type by Kevin Blighe ★ 4.0k
Hi, You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
Answer: featureCounts -L: high unassigned:mapq fraction by Kevin Blighe ★ 4.0k
Hi Katarzyna, The discrepancy arises because your samtools stats were restricted to genic regions only, where alignments are typically o…
Answer: Streamlining the computing time for MiloDE p-value correction in large dataset? by Kevin Blighe ★ 4.0k
Hi Joseph, I agree with ATpoint's suggestion that pseudobulk aggregation (e.g., via aggregateData in scran or similar) would likely be f…
Votes
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Suppress warning in RHDF5 write
Answer: Suppress warning in RHDF5 write
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