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2
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3
replies
1.4k
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vst with output of edgeR::calcNormFactors
DESeq2
updated 2.3 years ago by 52k • written 4.5 years ago by ★ 4.7k
0
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0
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1.4k
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Comment: C: vst with output of edgeR::calcNormFactors
4.5 years ago ATpoint ★ 4.7k
0
votes
0
replies
2.5k
views
Comment: C: Differential expression analysis of multiple RNA-seq datasets using DESeq2
4.5 years ago ATpoint ★ 4.7k
0
votes
0
replies
3.8k
views
Comment: C: CPM function in EDGER
4.5 years ago ATpoint ★ 4.7k
1
vote
1
reply
1.7k
views
Comment: C: Raw counts for reference dataset in single cell rnaseq
4.5 years ago ATpoint ★ 4.7k
0
votes
1
reply
6.4k
views
Comment: C: limma::removeBatchEffect into DESeq2
4.5 years ago ATpoint ★ 4.7k
0
votes
1
reply
3.1k
views
Comment: C: Cell cycle regression for scRNA-seq data
4.5 years ago ATpoint ★ 4.7k
3
votes
3
replies
3.1k
views
Cell cycle regression for scRNA-seq data
OSCA batchelor cell cycle regression
updated 4.5 years ago by ★ 28k • written 4.5 years ago by ★ 4.7k
0
votes
1
reply
4.3k
views
Comment: C: Is Limma's removeBatchEffect() and log2() commutative?
4.5 years ago ATpoint ★ 4.7k
5
votes
1
reply
4.9k
views
Answer: C: Rsamtools is not available for (for R version 4.0.2)
4.6 years ago ATpoint ★ 4.7k
0
votes
0
replies
1.9k
views
Comment: C: Visualization tool for GC-bias in SE data?
4.6 years ago ATpoint ★ 4.7k
0
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1
reply
1.5k
views
Comment: C: Why is an averaged reference used in DESeq2 normalisation?
4.7 years ago ATpoint ★ 4.7k
0
votes
1
reply
23k
views
Comment: C: DESeq2 batch correction best practice.
4.7 years ago ATpoint ★ 4.7k
0
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0
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2.9k
views
Comment: C: How to run tximport ?
4.7 years ago ATpoint ★ 4.7k
1
vote
1
reply
2.9k
views
Answer: A: How to run tximport ?
4.7 years ago ATpoint ★ 4.7k
1
vote
1
reply
1.6k
views
Comment: C: Correctly set contrast with DESeq2 for not full rank design matrix
4.7 years ago ATpoint ★ 4.7k
0
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0
replies
2.0k
views
Comment: C: Rsubread: change in behavior when accepting mixed paired end and single end file
4.7 years ago ATpoint ★ 4.7k
3
votes
1
reply
1.5k
views
Scaling option in fastMNN
fastmnn scater batchelor
updated 4.7 years ago by ★ 28k • written 4.7 years ago by ★ 4.7k
0
votes
1
reply
3.4k
views
Comment: C: plotPCA in DESeq2
4.7 years ago ATpoint ★ 4.7k
0
votes
1
reply
3.4k
views
Comment: C: plotPCA in DESeq2
4.7 years ago ATpoint ★ 4.7k
0
votes
1
reply
3.4k
views
Answer: C: plotPCA in DESeq2
4.7 years ago ATpoint ★ 4.7k
0
votes
0
replies
1.2k
views
Comment: C: DESeq Error (nbinomTest ())
4.7 years ago ATpoint ★ 4.7k
0
votes
2
replies
1.6k
views
Comment: C: Suggestion for next revision of edgeR User Guide re Design matrix setup
4.7 years ago ATpoint ★ 4.7k
0
votes
0
replies
539
views
Comment: C: about function parameters
4.8 years ago ATpoint ★ 4.7k
1
vote
1
reply
1.5k
views
Answer: A: Better way to find head to head GRanges?
4.8 years ago ATpoint ★ 4.7k
1
vote
0
replies
3.3k
views
Comment: C: edgeR + tximport: calcNormFactors and the usage of offsets
4.8 years ago ATpoint ★ 4.7k
0
votes
0
replies
885
views
Answer: C: Is there an easy way to do pos(x) <- pos(x) + 1 for a GPos object ?
4.8 years ago ATpoint ★ 4.7k
3
votes
1
reply
1.3k
views
Output lfc for Wilcox-based findMarkers
scran
updated 4.8 years ago by ★ 28k • written 4.8 years ago by ★ 4.7k
0
votes
1
reply
2.4k
views
Comment: C: full confounding between batch and treatment effects
4.8 years ago ATpoint ★ 4.7k
0
votes
1
reply
15k
views
Comment: C: keytype not supported in clusterprofiler when it is ensembl IDs?
4.8 years ago ATpoint ★ 4.7k
0
votes
0
replies
2.1k
views
Comment: C: error in creating kallisto index
4.8 years ago ATpoint ★ 4.7k
0
votes
0
replies
2.9k
views
Comment: C: how to do normalization using edageR
4.9 years ago ATpoint ★ 4.7k
0
votes
0
replies
635
views
Comment: C: How to upload a custom genome build at Galaxy
4.9 years ago ATpoint ★ 4.7k
0
votes
0
replies
11k
views
Comment: C: Clusterprofiler error: No gene can be mapped
4.9 years ago ATpoint ★ 4.7k
0
votes
0
replies
1.5k
views
Answer: A: csaw differential binding visualization
4.9 years ago ATpoint ★ 4.7k
1
vote
1
reply
2.6k
views
Answer: C: How to analyze pre-processed RNA-Seq data from GEO based on the deseq R package
4.9 years ago ATpoint ★ 4.7k
0
votes
0
replies
2.5k
views
Comment: C: selecting result from deseq2
4.9 years ago ATpoint ★ 4.7k
0
votes
0
replies
1.6k
views
Comment: C: DESeq2 result extraction
4.9 years ago ATpoint ★ 4.7k
0
votes
0
replies
825
views
Comment: C: a package with randomization/permutation tests for genomic analyses
5.0 years ago ATpoint ★ 4.7k
1
vote
0
replies
979
views
Comment: C: How are the P and adjusted P values calculated in de_analysis() from Lipidr?
5.0 years ago ATpoint ★ 4.7k
1
vote
0
replies
1.0k
views
Answer: A: searching siRNA sequence (19bp) against human genome
5.0 years ago ATpoint ★ 4.7k
0
votes
0
replies
1.1k
views
Comment: C: Working with compressed fasta files?
5.1 years ago ATpoint ★ 4.7k
6
votes
11
replies
2.7k
views
Correct use of tximport in combination with edgeR cpm()
tximport edgeR
5.8 years ago • updated 5.1 years ago ATpoint ★ 4.7k
0
votes
1
reply
824
views
Comment: C: Resetting git bioconductor password
5.1 years ago ATpoint ★ 4.7k
2
votes
1
reply
1.3k
views
Using Input Samples in ChIP-seq Differential Analysis (csaw/edgeR)
csaw chip-seq
updated 5.2 years ago by ★ 28k • written 5.2 years ago by ★ 4.7k
0
votes
0
replies
1.4k
views
Rsamtools / rtracklayer creating csi index for BAM files
rsamtools rtracklayer
5.2 years ago ATpoint ★ 4.7k
0
votes
0
replies
2.2k
views
Comment: C: How to adjust and align timepoints on x-axis in the ggplot2
5.2 years ago ATpoint ★ 4.7k
1
vote
1
reply
1.3k
views
Answer: C: Paired t-test with DESeq2
5.4 years ago ATpoint ★ 4.7k
0
votes
0
replies
1.1k
views
Comment: C: How to find sites with H3K27me3 loss?
5.4 years ago ATpoint ★ 4.7k
0
votes
0
replies
1.8k
views
Comment: C: Deseq2 post functional annotation for metagenome
5.4 years ago ATpoint ★ 4.7k
1,023 results • Page 20 of 21
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