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STATISTICS
•
reset
0
votes
6
replies
208
views
regression analysis for epic array methylation data using limma
limma
Epigenetics
STATISTICS
R
4 weeks ago
nabiyogesh
▴ 10
0
votes
3
replies
367
views
Reading large file (15GB) in R
R
Rstudio
Bioconducter
statistics
updated 4 months ago by
Sean Davis
21k • written 5 months ago by
nabiyogesh
▴ 10
3
votes
5
replies
629
views
P adjusted values in Deseq2
DESeq2
Statistics
written 17 months ago by
Jesus
• 0
0
votes
0
replies
190
views
News:
Ascona Workshop “Biological systems: from first principles to data-driven modelling and back” 27. 3. - 1. 4. 2022
theory
modeling
statistics
ascona
Workshop
8 months ago
Wolfgang Huber
13k
0
votes
0
replies
361
views
Job:
Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
singlecellRNA-Seq
pathview
statistics
R
15 months ago • updated 13 months ago
Luo Weijun
★ 1.5k
0
votes
0
replies
361
views
Job:
Bioinformatician at MiroBio, Oxford, UK
Transcriptomics
Bioconductor
Statistics
Job
Biocon
15 months ago
m.jackson
• 0
0
votes
0
replies
357
views
Job:
Scientist/Senior Scientist, Statistical Geneticist
Sequencing
Genetics
GeneticsPed
statistics
17 months ago
António Miguel de Jesus Domingues
▴ 480
0
votes
0
replies
459
views
Job:
Proteomics Bioinformatician
JobPosting
Proteomics
Statistics
Job
18 months ago
Laura
• 0
0
votes
0
replies
343
views
Job:
Biostatistics/Bioinformatics Research Scientist at UNC Charlotte
R
statistics
pathview
singlecellRNA-Seq
19 months ago • updated 15 months ago
Luo Weijun
★ 1.5k
1
vote
2
replies
326
views
Re-calculation of Padj (P adjusted value)
statistics
Benjamini–Hochberg procedure
deseq2
updated 20 months ago by
Michael Love
37k • written 20 months ago by
Matan G.
▴ 40
2
votes
0
replies
382
views
Job:
Multiple open positions in biomedical statistics at Eurac Research, Italy
epidemiology
statistics
bioinformatics
Job
21 months ago
Johannes Rainer
★ 1.9k
0
votes
0
replies
310
views
Job:
Two Bioinformatics Fellowship Positions at US EPA
bioinformatics
toxicology
Job
sequenicng
statistics
23 months ago • updated 19 months ago
whduke
• 0
0
votes
0
replies
1.4k
views
Job:
Postdoc and PhD student in Bioinformatics/Biostatistics
genomics
NGS
R
genetics
statistics
4.0 years ago • updated 19 months ago
Luo Weijun
★ 1.5k
1
vote
0
replies
334
views
Job:
Post-Doctoral Research Fellow, Cancer Genomics
genomics
seattle
bioinformatics
data science
statistics
Job
2.1 years ago
Fred Hutch (Recruiting)
▴ 40
3
votes
0
replies
1.6k
views
Job:
Postdoctoral Scientist, Statistical Bioinformatics and Proteomics, WEHI Australia
job
proteomics
Job
statistics
2.6 years ago • updated 2.5 years ago
Gordon Smyth
45k
0
votes
0
replies
875
views
Job:
Postdoc and PhD student in Bioinformatics/Biostatistics
NGS
R
statistics
genomics
big data
Job
3.4 years ago • updated 2.6 years ago
Luo Weijun
★ 1.5k
0
votes
1
reply
238
views
How to handle batch effect and interaction with experimental variables
deseq2
statistics
differential expression
2.6 years ago
A
• 0
0
votes
1
reply
301
views
Exclude interaction terms from the design
deseq2
statistics
modelling
updated 2.7 years ago by
Michael Love
37k • written 2.7 years ago by
polyptwo
• 0
2
votes
2
replies
852
views
How adjusted p-values are calculated in limma
limma
r
transcriptomics
FDR
statistics
updated 2.7 years ago by
Gordon Smyth
45k • written 2.7 years ago by
Wuschel
▴ 10
0
votes
0
replies
443
views
Proteomics data analysis with DEP no replicates
DEP
Proteomics
Statistics
limma
2.8 years ago
tatabox
• 0
3
votes
3
replies
558
views
Using alternative LFC shrinkage methods for computing p-values in DESeq2
deseq2
apeglm
statistics
updated 3.1 years ago by
Michael Love
37k • written 3.1 years ago by
zefrieira
• 0
0
votes
1
reply
462
views
Efficient resampling in GENESIS or another Bioconductor GWAS package to obtain empirical p-values?
GENESIS
GWAS
resampling
resample
statistics
3.4 years ago
naglemi
▴ 10
0
votes
0
replies
342
views
package for mismatch distribution?
genetics
statistics
3.4 years ago
myriam.croze07
• 0
0
votes
4
replies
1.3k
views
DESeq2 unbalanced sample size
deseq2
bioconductor
bioinformatics
statistics
updated 3.5 years ago by
Michael Love
37k • written 3.5 years ago by
casikecola
• 0
1
vote
2
replies
497
views
Newbie to all of this
bioconductor
statistics
3.7 years ago
sportwoo
• 0
8
votes
8
replies
3.7k
views
Voom transformation from counts and normalization to negative values
rnaseq
voom
limma
tcga
statistics
updated 3.8 years ago by
Ryan C. Thompson
7.8k • written 3.8 years ago by
Beginner
▴ 50
1
vote
2
replies
482
views
What to do with microarray probes that catch multiple genes?
affymetrix microarrays
microarray
probe
statistics
updated 3.8 years ago by
James W. MacDonald
60k • written 3.8 years ago by
ravelarvargas
• 0
1
vote
4
replies
661
views
Do the gene set statistics of the ROAST paper correspond to those implemented in the .roastEffects R function?
limma
roast
statistics
source code
gene set testing
3.8 years ago
Andrea Carenzo
• 0
0
votes
2
replies
548
views
comparing two GOstats result lists
gostats
statistics
updated 4.1 years ago by
James W. MacDonald
60k • written 4.1 years ago by
sven.schenk
▴ 20
1
vote
0
replies
624
views
Job:
Statistical Research Associate
biostatistics
statistics
sas
git
assay
Job
4.2 years ago
Fred Hutch (Recruiting)
▴ 40
0
votes
0
replies
573
views
DSS DMLTest Prior Estimate of theta dispersion
DSS
dmltest
bayesian
statistics
methylation
4.2 years ago
floriandeckert
▴ 30
0
votes
0
replies
594
views
News:
SCANGEN: Single-cell cancer genomics workshop at ISMB 2018
single cell
cancer genomics
statistics
News
4.2 years ago
kieranrcampbell
▴ 50
0
votes
0
replies
587
views
Two questions about pathifier package
pathways
statistics
microarray
4.5 years ago
arronar
• 0
14
votes
6
replies
5.9k
views
Effect of lfcThreshold on p-value in DESeq2
deseq2
rnaseq
statistics
updated 4.7 years ago by
James W. MacDonald
60k • written 4.7 years ago by
Russ Fraser
▴ 20
2
votes
4
replies
633
views
Removing batch effect on edgeR when interactons are looked at
rnaseq
edger
statistics
model matrix
updated 4.7 years ago by
Steve Lianoglou
13k • written 4.7 years ago by
David Rengel
▴ 70
0
votes
0
replies
688
views
Assigning stats to differential peak locations relative to TSS
chipseeker
chipseq
statistics
4.7 years ago
rbronste
▴ 60
0
votes
0
replies
978
views
Job:
Research Scientist in Biostatistics/Bioinformatics
statistics
genetics
genomics
R
Job
5.4 years ago • updated 5.2 years ago
Luo Weijun
★ 1.5k
1
vote
2
replies
1.5k
views
how to perform pre ranked GSEA in R?
r
microarray
statistics
GSEA
updated 5.3 years ago by
predeus
• 0 • written 7.3 years ago by
Nemo
▴ 80
0
votes
0
replies
832
views
Job:
Bioinformaticist, Research Programmer
R
genomics
statistics
Job
5.3 years ago
radel
• 0
1
vote
2
replies
2.1k
views
the statistical test that DESeq2 use
deseq2
statistics
updated 5.4 years ago by
Ryan C. Thompson
7.8k • written 5.4 years ago by
elhamdallalbashi
• 0
2
votes
2
replies
4.9k
views
edgeR: How is FDR calculated for logFC? (False Discovery Rate)
edgeR
bioconductor
fdr
statistics
differential gene expression
5.5 years ago
jol.espinoz
▴ 40
1
vote
0
replies
1.1k
views
Job:
PhD Positions in Computational Cancer Research
computational biology
image analysis
cancer genomics
statistics
Job
5.6 years ago
Bernd Fischer
▴ 550
0
votes
0
replies
762
views
Job:
Seeking computational biologists with expertise in RNA-Seq and/or statistics at Immuneering Corporation, Cambridge MA and New York NY
rna-seq
CNS
Neurodegeneration
statistics
computational biology
Job
5.7 years ago
mmartin
▴ 20
0
votes
0
replies
824
views
Job:
Postdoc in Biostatistics/Bioinformatics at UNC Charlotte, NC, USA
genetics/genomics
omics data
statistics
development
R
Job
5.9 years ago • updated 5.8 years ago
Luo Weijun
★ 1.5k
0
votes
0
replies
1.4k
views
News:
Workshop on Statistical Challenges in Single-Cell Biology, April 30 to May 5, 2017, at Villa Monte Verita, Ascona
workshop
statistics
single-cell
News
5.8 years ago
Wolfgang Huber
13k
0
votes
0
replies
1.4k
views
Job:
Bioinformatics Programmer (Statistician) at University of California at San Francisco
R
bioinformatician job
Perl
Python
statistics
Job
6.2 years ago • updated 5.9 years ago
clif.duhn
• 0
0
votes
4
replies
4.2k
views
10 multiple comparisons in DESeq2
deseq2
rnaseq
statistics
updated 6.0 years ago by
Michael Love
37k • written 6.0 years ago by
kissmatee
• 0
2
votes
3
replies
965
views
RNAseq outlier is a critical sample
rnaseq
outlier
statistics
batch effect
updated 6.1 years ago by
Gordon Smyth
45k • written 6.1 years ago by
grastalt27
• 0
2
votes
1
reply
642
views
limma for gene expression analysis with big and unbalanced sample size
limma
microarray
statistics
updated 6.1 years ago by
Aaron Lun
★ 27k • written 6.1 years ago by
tati6406
• 0
8
votes
3
replies
2.2k
views
Differing topTable() results with Limma with and without specifying coefficient
limma
microarray
statistics
updated 6.2 years ago by
Gordon Smyth
45k • written 6.2 years ago by
krr
• 0
50 results • Page
1 of 1
Recent ...
Replies
Answer: Using queryMany() in mygene package: Problem of querying Entrez gene IDs based o
by
Guido Hooiveld
★ 3.3k
I am not familiar with the package `mygene`, but please note that unigene has been retired 3 years ago! https://ncbiinsights.ncbi.nlm.nih.g…
Answer: GC content
by
Robert Castelo
★ 2.9k
hi, The help page of `getGeneLengthAndGCContent()` says that this function "Automatically retrieves gene length and GC-content informati…
Comment: Finding differentially expressed genes in a prospective cohort study
by
YC
• 0
Thank you for your explanation and clarification. So, if I understand right, the purpose of building linear models in LIMMA is to find diff…
Comment: I got error message about DESeqDataSetFromMatrix
by
Md. Faridul
• 0
I run the library(DESeq2) then got error message. I am new in r. How to solve this error. Error: package or namespace load failed for ‘DES…
Comment: I got error message about DESeqDataSetFromMatrix
by
Md. Faridul
• 0
Yes , I did.
Votes
C: Converting numeric variables to factors in DESeq metadata
C: Converting numeric variables to factors in DESeq metadata
Comment: miRNA differential expression analysis - treat as transcript level?
At least one covariate is confounded with batch! Please remove confounded covariates and rerun ComBat
Comment: RSEM - tximport; where is effective_length information used? Implications for sc
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