Showing : lmer • reset
2
votes
12
replies
1.6k
views
limma technical repeat correction
limma lmer duplicateCorrelation technicalrepeats
8 weeks ago • updated 29 days ago john • 0
0
votes
0
replies
420
views
Linear Mixed Model for Differential Gene Expression in Single-Cell RNAseq with Batch Effects
lmer MAST DifferentialExpression
5 months ago nhaus ▴ 70
4
votes
2
replies
1.1k
views
Two-way interaction, linear redundancy
limma caret lm lmer lme4
updated 5.4 years ago by ★ 28k • written 5.4 years ago by ▴ 110
2
votes
6
replies
2.2k
views
Bumphunting for longitudinal data
bumphunter minfi lmer dmrcate dmr analysis
updated 6.6 years ago by ▴ 200 • written 6.6 years ago by • 0
0
votes
6
replies
3.5k
views
Analyzing pre/post (longitudinal) data using limma/lme4 with adjustment for continuous covariates
illumina450k limma lme4 lmer
updated 8.7 years ago by ★ 28k • written 8.7 years ago by • 0
5 results • Page 1 of 1
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Replies
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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