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0
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0
replies
226
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Spatt2.1 a mirMap dependency, anyone know where I can get it?
miRmap dependency tarball
8 weeks ago by RNAseqer ▴ 280
0
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0
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416
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Comment: Comment: identifying 3'utrs for multiple transcripts of genes from a summarized experimen
8 weeks ago by RNAseqer ▴ 280
4
votes
2
replies
416
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identifying 3'utrs for multiple transcripts of genes from a summarized experiment.
biomart transcriptome utr
8 weeks ago by RNAseqer ▴ 280
1
vote
0
replies
666
views
Comment: Comment: samtools version 1.17 having difficulty parsing a filtering command. advice?
4 months ago by RNAseqer ▴ 280
1
vote
3
replies
666
views
samtools version 1.17 having difficulty parsing a filtering command. advice?
samtools cell rnaseq single
updated 4 months ago by ▴ 370 • written 4 months ago by ▴ 280
0
votes
3
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667
views
Biomart issue, why so few 3'utrs?
utr biomart
updated 11 months ago by 150k • written 11 months ago by ▴ 280
0
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0
replies
489
views
Comment: Comment: mirbase gff and mature fastas for custom STAR index genome?
12 months ago by RNAseqer ▴ 280
0
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1
reply
423
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sorted bam file generated from gff transcript fastas, how to get counts with HTseq?
htseq bam
updated 12 months ago by 45k • written 12 months ago by ▴ 280
0
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1
reply
489
views
mirbase gff and mature fastas for custom STAR index genome?
mirbase indexing star genome
12 months ago by RNAseqer ▴ 280
0
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2
replies
1.4k
views
Comment: Comment: Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not pres
16 months ago by RNAseqer ▴ 280
3
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4
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1.4k
views
Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not present in R
FDR volcano plotting R plot
updated 16 months ago by ★ 1.6k • written 16 months ago by ▴ 280
1
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2
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2.2k
views
junction_annotation.py: How many 'novel' splice junctions/splice events are resonably expected from human RNA,
RNA-Seq junction_annotation.py human
updated 19 months ago by ▴ 20 • written 6.2 years ago by ▴ 280
2
votes
1
reply
1.2k
views
coef /makeContrasts very different results
makeContrasts coef2 edgeR
updated 23 months ago by ★ 7.9k • written 2.0 years ago by ▴ 280
0
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1
reply
1.1k
views
mirge3.0 custom miRNA db option
database custom miRNA mirge3.0
updated 2.2 years ago by • 0 • written 3.8 years ago by ▴ 280
6
votes
2
replies
2.2k
views
WGCNA: outputting multiple hubgenes from a module
WGCNA HubGenes
updated 2.7 years ago by ▴ 30 • written 4.9 years ago by ▴ 280
0
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0
replies
450
views
custom sizing question in ggseqlogo. sequence logo creation
logo sequence R ggseqlogo
2.9 years ago by RNAseqer ▴ 280
0
votes
0
replies
443
views
geo database for integrated miRNA-mRNA sequencing of neural cell
mir-seq mrna-seq
3.1 years ago by RNAseqer ▴ 280
0
votes
0
replies
437
views
How to get a screeplot of surrogate variables from sva()
screeplot sva svaseq
3.1 years ago by RNAseqer ▴ 280
0
votes
0
replies
779
views
WGCNA, module preservation over permutations, how to?
module WGCNA preservation
3.3 years ago by RNAseqer ▴ 280
0
votes
0
replies
10k
views
Comment: Comment: convert from plink format into 012 format
3.4 years ago by RNAseqer ▴ 280
0
votes
0
replies
555
views
what regression model does step() in R use
lm function R model stepwise
3.4 years ago by RNAseqer ▴ 280
0
votes
1
reply
1.1k
views
How to extract beta coefficients from edgeR output
rnaseq beta coefficient r edger
updated 3.5 years ago by ★ 7.9k • written 3.5 years ago by ▴ 280
2
votes
1
reply
788
views
EdgeR exclude 0 count subjects for each gene
count edgeR R
updated 3.5 years ago by ★ 7.9k • written 3.5 years ago by ▴ 280
0
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0
replies
612
views
How do you convert vcf file to a genotype file useable by eigenstrat
conversion vcf format eigenstrat
3.5 years ago by RNAseqer ▴ 280
0
votes
0
replies
694
views
accessing the r-peer docker container.
docker peer r
3.5 years ago by RNAseqer ▴ 280
0
votes
1
reply
817
views
Analysis of a SNPs moderating effect on disease
SNP moderating-effect
updated 7 months ago by 45k • written 3.5 years ago by ▴ 280
0
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0
replies
1.2k
views
Comment: Comment: Most well regarded piRNA detection pipeline/program
3.5 years ago by RNAseqer ▴ 280
5
votes
2
replies
1.2k
views
Most well regarded piRNA detection pipeline/program
expression piRNA differential smallRNAseq detection
3.5 years ago by RNAseqer ▴ 280
0
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0
replies
569
views
how to identiify real isomers in mirge3.0's output files.
isomirs mirge3.0
3.6 years ago by RNAseqer ▴ 280
0
votes
0
replies
1.2k
views
REditools2 (HPC-reditools) de-novo editing prediction from RNAseq?
editing reditools2 prediction RNAseq
3.7 years ago by RNAseqer ▴ 280
0
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1
reply
1.1k
views
Comment: Comment: what is the best R package/function to perform an Equality of variance F-test on
3.8 years ago by RNAseqer ▴ 280
0
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3
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1.1k
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 3.8 years ago by 87k • written 3.8 years ago by ▴ 280
0
votes
0
replies
552
views
Can you get individual sample counts from Spar (Small RNA-seq portal for analysis of sequencing experiments)
Differential RNAseq SPAR Expression
3.9 years ago by RNAseqer ▴ 280
0
votes
0
replies
637
views
getting residuals from dream
dream limma residuals
4.0 years ago by RNAseqer ▴ 280
0
votes
0
replies
641
views
limma dream giving error message 'subscript out of bounds'
error Dream R
4.0 years ago by RNAseqer ▴ 280
0
votes
0
replies
1.0k
views
alternative package for littlesMCAR() or mcar_test()
littlesMCAR MCAR missingdata
4.1 years ago by RNAseqer ▴ 280
5
votes
2
replies
1.0k
views
Heirarchal regression for model comparison, RNA-seq
R RNA-seq heirarchalregression
updated 4.1 years ago by 87k • written 4.1 years ago by ▴ 280
0
votes
0
replies
1.9k
views
Comment: Comment: chi squared assesment of gene expression and batch effect
4.1 years ago by RNAseqer ▴ 280
1
vote
5
replies
1.9k
views
chi squared assesment of gene expression and batch effect
RNA-Seq r chi squared
4.1 years ago by RNAseqer ▴ 280
0
votes
1
reply
1.1k
views
model matrix error message 'unequal columns/rows' when using a conditional variable
rna-seq categorical variables edger
updated 4.1 years ago by ★ 7.9k • written 4.1 years ago by ▴ 280
0
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1
reply
771
views
Nesting a covariate for differential expression design
RNA-Seq nested covariates
updated 4.1 years ago by 20 • written 4.1 years ago by ▴ 280
0
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1
reply
1.9k
views
Comment: C: chi squared assesment of gene expression and batch effect
4.1 years ago by RNAseqer ▴ 280
1
vote
0
replies
846
views
Answer: A: voomWithDreamWeights() has missing "NA" wheights for last samples
4.1 years ago by RNAseqer ▴ 280
1
vote
1
reply
846
views
voomWithDreamWeights() has missing "NA" wheights for last samples
voomWithDreamWeights dream variaincePartition
4.1 years ago by RNAseqer ▴ 280
3
votes
4
replies
4.0k
views
GSEA pvalue output of 0.0. Can I make it more specific?
GSEA P-value
updated 4.2 years ago by ▴ 1000 • written 4.7 years ago by ▴ 280
0
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0
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6.6k
views
Comment: C: A question regarding log2 transformation in EdgeR
4.2 years ago by RNAseqer ▴ 280
11
votes
4
replies
6.6k
views
A question regarding log2 transformation in EdgeR
EdgeR log2 differentail expression analysis
updated 4.2 years ago by ★ 7.9k • written 4.2 years ago by ▴ 280
0
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1
reply
6.6k
views
Comment: C: A question regarding log2 transformation in EdgeR
4.2 years ago by RNAseqer ▴ 280
0
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0
replies
725
views
package for ICC plots from a matrix?
ICC plots R
4.2 years ago by RNAseqer ▴ 280
0
votes
0
replies
949
views
Comment: C: Is miarma-Seq being maintained?
4.4 years ago by RNAseqer ▴ 280
133 results • Page 1 of 3
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