Showing : no replicates • reset
0
votes
0
replies
849
views
MethylSig is not giving DMRs with no replicates
methylsig no replicates dmr
6.4 years ago nilaycan • 0
1
vote
5
replies
3.5k
views
steps to get up and down regulated genes using DESeq2
deseq2 without replicate no replicates
updated 6.6 years ago by 43k • written 6.6 years ago by • 0
4
votes
9
replies
11k
views
DESeq2, no replicate
deseq2 no replicates high p-adj values
updated 2.4 years ago by 43k • written 7.2 years ago by • 0
4
votes
8
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2.1k
views
Advice regarding RNAseq data with no replicates, best approach to accomplish fold-change
rnaseq edger DGE no replicates
7.4 years ago Stefany Solano • 0
2
votes
1
reply
1.4k
views
diffHiC with no biological replicates?
diffhic estimate dispersion value glm no replicates deseq
updated 7.7 years ago by ★ 28k • written 7.7 years ago by ▴ 20
5
votes
7
replies
5.0k
views
Differential binding of ATAC-seq data with no replicates
ATAC differential binding analysis no replicates DEseq2 chromatin
7.8 years ago BioinfGuru ▴ 70
6 results • Page 1 of 1
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Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0
Thanks for your reply!
Votes
C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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