Showing : SmallRNA • reset
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Unexpected behavior of lfcShrink() function in DESeq2 analysis
DESeq2 SmallRNA
updated 8 months ago by 42k • written 9 months ago by • 0
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Contradictory results in smallRNA differential expression analysis using DESeq2
SmallRNA DESeq2
2.3 years ago jucosie • 0
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small RNA counts
counts SmallRNA Normalization
updated 2.9 years ago by ▴ 80 • written 3.0 years ago by ▴ 30
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1.6k
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small dimensions in the matrix of counts from smallRNA using DESEq2
matrix DESeq2 SmallRNA dimensions small
3.2 years ago andreia ▴ 10
6
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7
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Normalization for small non-coding RNA
TMM deseq2 smallrna rnaseq
updated 6.0 years ago by ▴ 510 • written 6.0 years ago by ▴ 80
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Job: Post-doc in Prostate Cancer Research (Statistics / Computational Biology) at University of St Andrews (+PhD position also available)
cancer sequencing rnaseq methylation smallrna Job
6.4 years ago Andy Lynch ▴ 120
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Job: PhD Studentship - Investigating Regulation of Transcription and Translation in Prostate Cancer
mirna riboseq smallrna differential gene expression Job
6.7 years ago Andy Lynch ▴ 120
2
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10
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DEseq normalization Small RNA-seq data using rRNA
deseq2 normalization smallrna ribosomal rna
8.1 years ago mosharrofgeb ▴ 10
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small RNAs quantification
smallrna counts
8.2 years ago ribioinfo ▴ 100
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finding differential expression pattern between paired columns of data frame.
Sequencing SmallRNA Microarray limma Sequencing SmallRNA Microarray limma
updated 10.3 years ago by 67k • written 10.3 years ago by ▴ 70
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Bioconductor Digest, Vol 115, Issue 22
Transcription Sequencing miRNA SmallRNA Annotation Normalization GO Cancer Organism edgeR
updated 12.2 years ago by ★ 13k • written 12.2 years ago by ▴ 10
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Is normalization in edgeR required for small RNA sequencing data?
Sequencing SmallRNA edgeR Sequencing SmallRNA edgeR
updated 12.2 years ago by ▴ 880 • written 12.2 years ago by ▴ 40
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DESeq with no replicates
Sequencing miRNA SmallRNA DESeq Sequencing miRNA SmallRNA DESeq
updated 13.9 years ago by ★ 13k • written 13.9 years ago by ▴ 350
13 results • Page 1 of 1
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Comment: Help with RSEM counts: do I transpose matrix? by NB • 0
OK thank you.
Comment: Help with RSEM counts: do I transpose matrix? by James W. MacDonald 67k
You can ask here, but please read the `DESeq2` vignette first, which should answer most questions.
Comment: Help with RSEM counts: do I transpose matrix? by NB • 0
Thank you. If I have questions about QC/normalization, do I ask them here or ask a new question?
Answer: Help with RSEM counts: do I transpose matrix? by James W. MacDonald 67k
Yes. Samples in columns and genes in rows.
Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by James W. MacDonald 67k
It's not informative except for me to say I was right that it's `getSeq` that is providing the error. It appears that `AddMotifs` is passin…
Votes
Answer: Detecting genomic signatures of drug resistance breast cancer in transcriptom
Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac (
Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac (
Comment: does anyone how to create rarefaction curves from a phyloseq object?
Answer: ANOVA like approach of edgeR
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