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0
votes
3
replies
334
views
Biomart issue, why so few 3'utrs?
utr biomart
updated 10 weeks ago by 144k • written 10 weeks ago by ▴ 270
0
votes
0
replies
272
views
Comment: Comment: mirbase gff and mature fastas for custom STAR index genome?
3 months ago by RNAseqer ▴ 270
0
votes
1
reply
227
views
sorted bam file generated from gff transcript fastas, how to get counts with HTseq?
htseq bam
updated 3 months ago by 44k • written 3 months ago by ▴ 270
0
votes
1
reply
272
views
mirbase gff and mature fastas for custom STAR index genome?
mirbase indexing star genome
3 months ago by RNAseqer ▴ 270
0
votes
2
replies
878
views
Comment: Comment: Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not pres
8 months ago by RNAseqer ▴ 270
3
votes
4
replies
878
views
Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not present in R
FDR volcano plotting R plot
updated 8 months ago by ★ 1.6k • written 8 months ago by ▴ 270
1
vote
2
replies
1.9k
views
junction_annotation.py: How many 'novel' splice junctions/splice events are resonably expected from human RNA,
RNA-Seq junction_annotation.py human
updated 10 months ago by ▴ 20 • written 5.5 years ago by ▴ 270
2
votes
1
reply
895
views
coef /makeContrasts very different results
makeContrasts coef2 edgeR
updated 14 months ago by ★ 7.3k • written 15 months ago by ▴ 270
0
votes
1
reply
962
views
mirge3.0 custom miRNA db option
database custom miRNA mirge3.0
updated 17 months ago by • 0 • written 3.1 years ago by ▴ 270
6
votes
2
replies
1.9k
views
WGCNA: outputting multiple hubgenes from a module
WGCNA HubGenes
updated 24 months ago by ▴ 30 • written 4.1 years ago by ▴ 270
0
votes
0
replies
368
views
custom sizing question in ggseqlogo. sequence logo creation
logo sequence R ggseqlogo
2.2 years ago by RNAseqer ▴ 270
0
votes
0
replies
373
views
geo database for integrated miRNA-mRNA sequencing of neural cell
mir-seq mrna-seq
2.4 years ago by RNAseqer ▴ 270
0
votes
0
replies
348
views
How to get a screeplot of surrogate variables from sva()
screeplot sva svaseq
2.4 years ago by RNAseqer ▴ 270
0
votes
0
replies
666
views
WGCNA, module preservation over permutations, how to?
module WGCNA preservation
2.6 years ago by RNAseqer ▴ 270
0
votes
0
replies
9.9k
views
Comment: Comment: convert from plink format into 012 format
2.6 years ago by RNAseqer ▴ 270
0
votes
0
replies
438
views
what regression model does step() in R use
lm function R model stepwise
2.7 years ago by RNAseqer ▴ 270
0
votes
1
reply
903
views
How to extract beta coefficients from edgeR output
rnaseq beta coefficient r edger
updated 2.7 years ago by ★ 7.3k • written 2.8 years ago by ▴ 270
2
votes
1
reply
615
views
EdgeR exclude 0 count subjects for each gene
count edgeR R
updated 2.7 years ago by ★ 7.3k • written 2.7 years ago by ▴ 270
0
votes
0
replies
495
views
How do you convert vcf file to a genotype file useable by eigenstrat
conversion vcf format eigenstrat
2.7 years ago by RNAseqer ▴ 270
0
votes
0
replies
596
views
accessing the r-peer docker container.
docker peer r
2.8 years ago by RNAseqer ▴ 270
0
votes
1
reply
657
views
Analysis of a SNPs moderating effect on disease
effect SNP moderating
updated 2.8 years ago by 6.5k • written 2.8 years ago by ▴ 270
0
votes
0
replies
987
views
Comment: Comment: Most well regarded piRNA detection pipeline/program
2.8 years ago by RNAseqer ▴ 270
5
votes
2
replies
987
views
Most well regarded piRNA detection pipeline/program
expression piRNA differential smallRNAseq detection
2.8 years ago by RNAseqer ▴ 270
0
votes
0
replies
472
views
how to identiify real isomers in mirge3.0's output files.
isomirs mirge3.0
2.8 years ago by RNAseqer ▴ 270
0
votes
0
replies
938
views
REditools2 (HPC-reditools) de-novo editing prediction from RNAseq?
editing reditools2 prediction RNAseq
2.9 years ago by RNAseqer ▴ 270
0
votes
1
reply
917
views
Comment: Comment: what is the best R package/function to perform an Equality of variance F-test on
3.0 years ago by RNAseqer ▴ 270
0
votes
3
replies
917
views
what is the best R package/function to perform an Equality of variance F-test on TMM log2 gene expression values
gene-expression F-test equality-of-variance
updated 3.0 years ago by 84k • written 3.0 years ago by ▴ 270
0
votes
0
replies
486
views
Can you get individual sample counts from Spar (Small RNA-seq portal for analysis of sequencing experiments)
Differential RNAseq SPAR Expression
3.2 years ago by RNAseqer ▴ 270
0
votes
0
replies
538
views
getting residuals from dream
dream limma residuals
3.3 years ago by RNAseqer ▴ 270
0
votes
0
replies
539
views
limma dream giving error message 'subscript out of bounds'
error Dream R
3.3 years ago by RNAseqer ▴ 270
0
votes
0
replies
869
views
alternative package for littlesMCAR() or mcar_test()
littlesMCAR MCAR missingdata
3.3 years ago by RNAseqer ▴ 270
5
votes
2
replies
878
views
Heirarchal regression for model comparison, RNA-seq
R RNA-seq heirarchalregression
updated 3.3 years ago by 84k • written 3.3 years ago by ▴ 270
0
votes
0
replies
1.5k
views
Comment: Comment: chi squared assesment of gene expression and batch effect
3.3 years ago by RNAseqer ▴ 270
1
vote
5
replies
1.5k
views
chi squared assesment of gene expression and batch effect
RNA-Seq r chi squared
3.3 years ago by RNAseqer ▴ 270
0
votes
1
reply
853
views
model matrix error message 'unequal columns/rows' when using a conditional variable
rna-seq categorical variables edger
updated 3.4 years ago by ★ 7.3k • written 3.4 years ago by ▴ 270
0
votes
1
reply
643
views
Nesting a covariate for differential expression design
RNA-Seq nested covariates
updated 3.4 years ago by 20 • written 3.4 years ago by ▴ 270
0
votes
1
reply
1.5k
views
Comment: C: chi squared assesment of gene expression and batch effect
3.4 years ago by RNAseqer ▴ 270
1
vote
1
reply
719
views
voomWithDreamWeights() has missing "NA" wheights for last samples
voomWithDreamWeights dream variaincePartition
3.4 years ago by RNAseqer ▴ 270
1
vote
0
replies
719
views
Answer: A: voomWithDreamWeights() has missing "NA" wheights for last samples
3.4 years ago by RNAseqer ▴ 270
3
votes
4
replies
3.4k
views
GSEA pvalue output of 0.0. Can I make it more specific?
GSEA P-value
updated 3.4 years ago by ▴ 930 • written 4.0 years ago by ▴ 270
0
votes
0
replies
5.3k
views
Comment: C: A question regarding log2 transformation in EdgeR
3.4 years ago by RNAseqer ▴ 270
9
votes
4
replies
5.3k
views
A question regarding log2 transformation in EdgeR
EdgeR log2 differentail expression analysis
updated 3.4 years ago by ★ 7.3k • written 3.4 years ago by ▴ 270
0
votes
1
reply
5.3k
views
Comment: C: A question regarding log2 transformation in EdgeR
3.4 years ago by RNAseqer ▴ 270
0
votes
0
replies
613
views
package for ICC plots from a matrix?
ICC plots R
3.5 years ago by RNAseqer ▴ 270
0
votes
0
replies
809
views
Comment: C: Is miarma-Seq being maintained?
3.6 years ago by RNAseqer ▴ 270
2
votes
4
replies
809
views
Is miarma-Seq being maintained?
miarma-Seq miRNA RNA-Seq
3.6 years ago by RNAseqer ▴ 270
0
votes
0
replies
590
views
best practices/ pipeline for miRNA sequencing QC
RNA-Seq miRNA-seq QC
3.7 years ago by RNAseqer ▴ 270
0
votes
1
reply
1.0k
views
Is there a good reference matrix for miRNA array deconvolution?
miRNA microarray deconvolution
updated 4.0 years ago by • 0 • written 4.3 years ago by ▴ 270
0
votes
1
reply
673
views
constructing a reference matrix from affy 2.0 chip for a 4.0 chip.
affy miRNA Affymetrix Multispecies miRNA-1 Array
4.2 years ago by RNAseqer ▴ 270
1
vote
0
replies
2.1k
views
Comment: C: affy Transcriptome Analysis Console (TAC), export expression matrix?
4.2 years ago by RNAseqer ▴ 270
128 results • Page 1 of 3
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