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0
votes
0
replies
153
views
Comment:
Comment: mirbase gff and mature fastas for custom STAR index genome?
16 days ago by
RNAseqer
▴ 260
0
votes
1
reply
144
views
sorted bam file generated from gff transcript fastas, how to get counts with HTseq?
htseq
bam
updated 16 days ago by
Ram
43k • written 16 days ago by
RNAseqer
▴ 260
0
votes
1
reply
153
views
mirbase gff and mature fastas for custom STAR index genome?
mirbase
indexing
star
genome
16 days ago by
RNAseqer
▴ 260
0
votes
2
replies
596
views
Comment:
Comment: Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not pres
4 months ago by
RNAseqer
▴ 260
3
votes
4
replies
596
views
Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not present in R
FDR
volcano
plotting
R
plot
updated 4 months ago by
Nitin Narwade
★ 1.6k • written 4 months ago by
RNAseqer
▴ 260
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 7 months ago by
Nicolas Lichilin
▴ 20 • written 5.2 years ago by
RNAseqer
▴ 260
2
votes
1
reply
801
views
coef /makeContrasts very different results
makeContrasts
coef2
edgeR
updated 11 months ago by
Gordon Smyth
★ 7.0k • written 12 months ago by
RNAseqer
▴ 260
0
votes
1
reply
905
views
mirge3.0 custom miRNA db option
database
custom
miRNA
mirge3.0
updated 14 months ago by
arun
• 0 • written 2.8 years ago by
RNAseqer
▴ 260
6
votes
2
replies
1.8k
views
WGCNA: outputting multiple hubgenes from a module
WGCNA
HubGenes
updated 21 months ago by
tiancaigg
▴ 30 • written 3.9 years ago by
RNAseqer
▴ 260
0
votes
0
replies
336
views
custom sizing question in ggseqlogo. sequence logo creation
logo
sequence
R
ggseqlogo
22 months ago by
RNAseqer
▴ 260
0
votes
0
replies
348
views
geo database for integrated miRNA-mRNA sequencing of neural cell
mir-seq
mrna-seq
2.1 years ago by
RNAseqer
▴ 260
0
votes
0
replies
313
views
How to get a screeplot of surrogate variables from sva()
screeplot
sva
svaseq
2.1 years ago by
RNAseqer
▴ 260
0
votes
0
replies
607
views
WGCNA, module preservation over permutations, how to?
module
WGCNA
preservation
2.3 years ago by
RNAseqer
▴ 260
0
votes
0
replies
9.6k
views
Comment:
Comment: convert from plink format into 012 format
2.4 years ago by
RNAseqer
▴ 260
0
votes
0
replies
398
views
what regression model does step() in R use
lm
function
R
model
stepwise
2.4 years ago by
RNAseqer
▴ 260
0
votes
1
reply
838
views
How to extract beta coefficients from edgeR output
rnaseq
beta
coefficient
r
edger
updated 2.5 years ago by
Gordon Smyth
★ 7.0k • written 2.5 years ago by
RNAseqer
▴ 260
2
votes
1
reply
574
views
EdgeR exclude 0 count subjects for each gene
count
edgeR
R
updated 2.5 years ago by
Gordon Smyth
★ 7.0k • written 2.5 years ago by
RNAseqer
▴ 260
0
votes
0
replies
467
views
How do you convert vcf file to a genotype file useable by eigenstrat
conversion
vcf
format
eigenstrat
2.5 years ago by
RNAseqer
▴ 260
0
votes
0
replies
558
views
accessing the r-peer docker container.
docker
peer
r
2.5 years ago by
RNAseqer
▴ 260
0
votes
1
reply
600
views
Analysis of a SNPs moderating effect on disease
effect
SNP
moderating
updated 2.5 years ago by
colindaven
6.3k • written 2.5 years ago by
RNAseqer
▴ 260
0
votes
0
replies
912
views
Comment:
Comment: Most well regarded piRNA detection pipeline/program
2.5 years ago by
RNAseqer
▴ 260
5
votes
2
replies
912
views
Most well regarded piRNA detection pipeline/program
expression
piRNA
differential
smallRNAseq
detection
2.5 years ago by
RNAseqer
▴ 260
0
votes
0
replies
440
views
how to identiify real isomers in mirge3.0's output files.
isomirs
mirge3.0
2.6 years ago by
RNAseqer
▴ 260
0
votes
0
replies
856
views
REditools2 (HPC-reditools) de-novo editing prediction from RNAseq?
editing
reditools2
prediction
RNAseq
2.7 years ago by
RNAseqer
▴ 260
0
votes
1
reply
850
views
Comment:
Comment: what is the best R package/function to perform an Equality of variance F-test on
2.8 years ago by
RNAseqer
▴ 260
0
votes
3
replies
850
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 2.8 years ago by
ATpoint
81k • written 2.8 years ago by
RNAseqer
▴ 260
0
votes
0
replies
465
views
Can you get individual sample counts from Spar (Small RNA-seq portal for analysis of sequencing experiments)
Differential
RNAseq
SPAR
Expression
2.9 years ago by
RNAseqer
▴ 260
0
votes
0
replies
502
views
getting residuals from dream
dream
limma
residuals
3.0 years ago by
RNAseqer
▴ 260
0
votes
0
replies
506
views
limma dream giving error message 'subscript out of bounds'
error
Dream
R
3.0 years ago by
RNAseqer
▴ 260
0
votes
0
replies
793
views
alternative package for littlesMCAR() or mcar_test()
littlesMCAR
MCAR
missingdata
3.1 years ago by
RNAseqer
▴ 260
5
votes
2
replies
829
views
Heirarchal regression for model comparison, RNA-seq
R
RNA-seq
heirarchalregression
updated 3.1 years ago by
ATpoint
81k • written 3.1 years ago by
RNAseqer
▴ 260
0
votes
0
replies
1.4k
views
Comment:
Comment: chi squared assesment of gene expression and batch effect
3.1 years ago by
RNAseqer
▴ 260
1
vote
5
replies
1.4k
views
chi squared assesment of gene expression and batch effect
RNA-Seq
r
chi squared
3.1 years ago by
RNAseqer
▴ 260
0
votes
1
reply
796
views
model matrix error message 'unequal columns/rows' when using a conditional variable
rna-seq
categorical variables
edger
updated 3.1 years ago by
Gordon Smyth
★ 7.0k • written 3.1 years ago by
RNAseqer
▴ 260
0
votes
1
reply
604
views
Nesting a covariate for differential expression design
RNA-Seq
nested
covariates
updated 3.1 years ago by
Biostar
20 • written 3.1 years ago by
RNAseqer
▴ 260
0
votes
1
reply
1.4k
views
Comment:
C: chi squared assesment of gene expression and batch effect
3.1 years ago by
RNAseqer
▴ 260
1
vote
1
reply
657
views
voomWithDreamWeights() has missing "NA" wheights for last samples
voomWithDreamWeights
dream
variaincePartition
3.1 years ago by
RNAseqer
▴ 260
1
vote
0
replies
657
views
Answer:
A: voomWithDreamWeights() has missing "NA" wheights for last samples
3.1 years ago by
RNAseqer
▴ 260
3
votes
4
replies
3.1k
views
GSEA pvalue output of 0.0. Can I make it more specific?
GSEA
P-value
updated 3.2 years ago by
alserg
▴ 920 • written 3.7 years ago by
RNAseqer
▴ 260
0
votes
0
replies
4.8k
views
Comment:
C: A question regarding log2 transformation in EdgeR
3.2 years ago by
RNAseqer
▴ 260
9
votes
4
replies
4.8k
views
A question regarding log2 transformation in EdgeR
EdgeR
log2
differentail expression analysis
updated 3.2 years ago by
Gordon Smyth
★ 7.0k • written 3.2 years ago by
RNAseqer
▴ 260
0
votes
1
reply
4.8k
views
Comment:
C: A question regarding log2 transformation in EdgeR
3.2 years ago by
RNAseqer
▴ 260
0
votes
0
replies
576
views
package for ICC plots from a matrix?
ICC
plots
R
3.2 years ago by
RNAseqer
▴ 260
0
votes
0
replies
757
views
Comment:
C: Is miarma-Seq being maintained?
3.4 years ago by
RNAseqer
▴ 260
2
votes
4
replies
757
views
Is miarma-Seq being maintained?
miarma-Seq
miRNA
RNA-Seq
3.4 years ago by
RNAseqer
▴ 260
0
votes
0
replies
556
views
best practices/ pipeline for miRNA sequencing QC
RNA-Seq
miRNA-seq
QC
3.4 years ago by
RNAseqer
▴ 260
0
votes
1
reply
1.0k
views
Is there a good reference matrix for miRNA array deconvolution?
miRNA
microarray
deconvolution
updated 3.7 years ago by
xinyiy027
• 0 • written 4.0 years ago by
RNAseqer
▴ 260
0
votes
1
reply
634
views
constructing a reference matrix from affy 2.0 chip for a 4.0 chip.
affy
miRNA
Affymetrix Multispecies miRNA-1 Array
4.0 years ago by
RNAseqer
▴ 260
1
vote
0
replies
2.0k
views
Comment:
C: affy Transcriptome Analysis Console (TAC), export expression matrix?
4.0 years ago by
RNAseqer
▴ 260
3
votes
2
replies
2.0k
views
affy Transcriptome Analysis Console (TAC), export expression matrix?
affy
TAC
expression matrix
4.0 years ago by
RNAseqer
▴ 260
127 results • Page
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