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genefilter
•
reset
10
votes
20
replies
5.1k
views
Macbook M1 install genefilter failed
DESeq2
m1
macbook
genefilter
updated 4 months ago by
Ryan
• 0 • written 9 months ago by
soda
▴ 80
0
votes
1
reply
198
views
collided row names in heatmap.2
heatmap.2
genefilter
deseq2
updated 9 months ago by
James W. MacDonald
59k • written 9 months ago by
Elham
• 0
0
votes
2
replies
471
views
genefilter not available for R v4.1/arm64
DESeq2
genefilter
10 months ago
jeremymsimon
• 0
0
votes
1
reply
282
views
Error using simpleaffy
software error
simpleaffy
genefilter
updated 2.7 years ago by
James W. MacDonald
59k • written 2.7 years ago by
jordiroval
• 0
8
votes
10
replies
1.0k
views
Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?
limma
microarray
genefilter
deseq2
2.9 years ago
Jurat Shahidin
▴ 70
0
votes
6
replies
895
views
Save ExpressionSet to csv file with columns and rows headers
microarray
genefilter
updated 3.0 years ago by
James W. MacDonald
59k • written 3.0 years ago by
malik.yousef
▴ 10
0
votes
1
reply
979
views
genefilter Package not available for R 3.5.2
genefilter
3.4 years ago
radhikasundar520
• 0
0
votes
1
reply
1.4k
views
Can not install packages
ballgown
genefilter
RskittleBrewer
updated 3.5 years ago by
Mike Smith
★ 5.5k • written 3.5 years ago by
Mithil Gaikwad
• 0
0
votes
5
replies
1.0k
views
Annotating Expression Set for GSVA w/ Brainarray Human Gene 1.1 ST Array CDF
bioconductor
brainarray
genefilter
oligo
updated 3.9 years ago by
James W. MacDonald
59k • written 4.0 years ago by
kdyson
• 0
0
votes
1
reply
980
views
Unable to compile genefilter package
bioconductor
genefilter
compile
updated 4.2 years ago by
James W. MacDonald
59k • written 4.2 years ago by
joanne.kite
• 0
0
votes
3
replies
1.2k
views
error in filtering genes with rowVars(gexpr(bg_chrX)) >1
genefilter
ballgown
updated 4.3 years ago by
importantrubbish
• 0 • written 4.8 years ago by
fubeide
• 0
0
votes
1
reply
958
views
Error in checkFullRank(modelMatrix) : the model matrix is not full rank, ?
deseq2
filter
genefilter
updated 4.5 years ago by
Michael Love
36k • written 4.6 years ago by
Björn
• 0
1
vote
4
replies
1.3k
views
cran check shows that genefilter is not available
genefilter
4.5 years ago
jinkaixiu
▴ 10
1
vote
3
replies
763
views
Selecting genes that best separate between two groups
limma
genefilter
ttest
clustering
TPM
4.7 years ago
lirongrossmann
▴ 60
1
vote
5
replies
746
views
error when trying to apply the specific gene filter.
genefilter
4.8 years ago
DataFanatic
• 0
6
votes
5
replies
12k
views
Installation of package DESeq2
deseq2
rcurl
annotate
genefilter
geneplotter
updated 5.4 years ago by
Martin Morgan
25k • written 5.4 years ago by
Rémi Willamme
▴ 10
1
vote
4
replies
1000
views
Error in the package of "genefilter" "nsFilter"
genefilter
updated 5.6 years ago by
James W. MacDonald
59k • written 5.6 years ago by
Lian Liu
▴ 20
3
votes
5
replies
1.6k
views
Fail to install "AnnotationHub"
software error
annotation
genefilter
pd.hta.2.0
updated 5.6 years ago by
Martin Morgan
25k • written 5.6 years ago by
Lian Liu
▴ 20
3
votes
1
reply
684
views
Is it valid to use only genes of interest before eBayes step in limma?
limma
genefilter
updated 5.9 years ago by
Aaron Lun
★ 27k • written 5.9 years ago by
minabashir
• 0
6
votes
6
replies
1.3k
views
genefilter filtered out 60% of the original genes?
genefilter
edgeR
updated 6.0 years ago by
Nikos Ignatiadis
▴ 170 • written 6.0 years ago by
cafelumiere12
▴ 20
1
vote
1
reply
1.1k
views
Error using nsFilter() Error in (function (classes, fdef, mtable) unable to find an inherited method for function columns for signature function
genefilter
6.0 years ago
Lucy
• 0
2
votes
1
reply
1.0k
views
Filtering array data with nsFilter
genefilter
nsFilter
updated 6.1 years ago by
Gordon Smyth
45k • written 6.1 years ago by
emarram1
• 0
0
votes
1
reply
717
views
Really weird results when I filter this new data that I have, script has worked on two previous data sets.
microarray
limma
genefilter
updated 6.2 years ago by
James W. MacDonald
59k • written 6.2 years ago by
hakimelakhrass
• 0
0
votes
1
reply
810
views
nsFilter not filtering out all of the normgene->exon.
genefilter
affymetrix microarrays
updated 6.3 years ago by
James W. MacDonald
59k • written 6.3 years ago by
hakimelakhrass
• 0
2
votes
2
replies
856
views
I'm looking for a filtering method that it does't use genewise variances
genefilter
liimma
microarray
updated 6.4 years ago by
Wolfgang Huber
13k • written 6.4 years ago by
Shamim Sarhadi
▴ 20
4
votes
4
replies
1.5k
views
Suggestions for non-specific filtering criteria with limma
limma
genefilter
updated 6.4 years ago by
Wolfgang Huber
13k • written 6.4 years ago by
rvinisko
▴ 10
4
votes
4
replies
1.9k
views
DEXSeq and Independent filtering
dexseq
deseq2
genefilter
updated 6.5 years ago by
Wolfgang Huber
13k • written 6.5 years ago by
Joseph Bundy
▴ 20
2
votes
12
replies
1.5k
views
I want to order genes in GO groups
gene ontology
genefilter
updated 6.7 years ago by
b.nota
▴ 360 • written 6.7 years ago by
kanacska
▴ 10
0
votes
2
replies
2.2k
views
Error with oligo: environmentIsLocked
oligo
bioconductor
genefilter
updated 6.7 years ago by
James W. MacDonald
59k • written 6.7 years ago by
Claudia
▴ 10
0
votes
1
reply
999
views
simpleaffy segmentation fault
Survival
probe
genefilter
affy
affyio
Survival
probe
genefilter
affy
affyio
updated 7.0 years ago by
vlagani
• 0 • written 15.4 years ago by
Sucheta Tripathy
▴ 170
2
votes
7
replies
1.1k
views
why genefilter does not work for me ?
R
microarray
genefilter
7.3 years ago
Nemo
▴ 80
4
votes
4
replies
2.0k
views
Non-specific filtering methodogies for ExpressionSet in R/Bioconductor
genefilter
R
bioconductor
differential gene expression
updated 7.4 years ago by
Gordon Smyth
45k • written 7.4 years ago by
svlachavas
▴ 780
7
votes
5
replies
1.3k
views
Adjusted P values
limma
genefilter
updated 7.5 years ago by
Gordon Smyth
45k • written 7.5 years ago by
kaushal Raj Chaudhary
▴ 10
2
votes
4
replies
1.2k
views
filter.log in nsFilter function (package genefilter) gives null value
genefilter
updated 7.6 years ago by
James W. MacDonald
59k • written 7.6 years ago by
kaushal Raj Chaudhary
▴ 10
1
vote
3
replies
7.1k
views
genefilter installation error
genefilter
genefilter
updated 7.7 years ago by
Cherif Ben Hamda
▴ 150 • written 7.8 years ago by
Subinoy Biswas
▴ 10
0
votes
1
reply
748
views
selection of probes, probesets mapping to the same gene
genefilter
genefilter
updated 7.8 years ago by
Wolfgang Huber
13k • written 7.8 years ago by
carol white
▴ 680
0
votes
2
replies
953
views
Fwd: adjusted P-values
Cancer
genefilter
Cancer
genefilter
updated 8.0 years ago by
Tim Triche
★ 4.2k • written 8.0 years ago by
Martin Rijlaarsdam
▴ 190
0
votes
0
replies
588
views
adjusted P-values
genefilter
genefilter
8.0 years ago
Guest User
★ 12k
0
votes
1
reply
3.4k
views
error in installing \"genefilter\"
genefilter
genefilter
updated 8.1 years ago by
James W. MacDonald
59k • written 8.1 years ago by
Guest User
★ 12k
1
vote
1
reply
1.6k
views
Rosetta Resolver-like error-weighted ANOVAs in Bioconductor
Microarray
genefilter
affy
Microarray
genefilter
affy
updated 8.2 years ago by
Ryan C. Thompson
7.8k • written 8.2 years ago by
Ida Hatoum
▴ 10
0
votes
4
replies
1.4k
views
genefilter kOverA filter by range
genefilter
genefilter
updated 8.3 years ago by
James W. MacDonald
59k • written 8.3 years ago by
Kristina M Fontanez
▴ 220
0
votes
1
reply
851
views
Fwd: [devteam-bioc] information about genefilter package
Microarray
genefilter
limma
Microarray
genefilter
limma
updated 8.6 years ago by
James W. MacDonald
59k • written 8.6 years ago by
Hervé Pagès
15k
0
votes
3
replies
1.5k
views
Problem installing genefilter (Ubuntu 12.04; Bioconductor v2.12)
genefilter
genefilter
updated 8.8 years ago by
James W. MacDonald
59k • written 8.8 years ago by
Guest User
★ 12k
0
votes
9
replies
1.1k
views
Error in calculating P-values with Genefilter function
genefilter
genefilter
updated 9.0 years ago by
James W. MacDonald
59k • written 9.0 years ago by
Guest User
★ 12k
0
votes
2
replies
2.0k
views
[R] Select single probe-set with median expression from multiple probe-sets corresponding to same gene -AFFY
GO
probe
Biobase
genefilter
GO
probe
Biobase
genefilter
updated 9.1 years ago by
Martin Morgan
25k • written 9.1 years ago by
Atul Kakrana
▴ 30
0
votes
0
replies
709
views
analysis of HuGene2.0-st array affymetrix -aroma package
genefilter
genefilter
9.2 years ago
Andreia Fonseca
▴ 810
0
votes
1
reply
818
views
Help with installing genefilter -- "installed directory not writable"
Microarray
genefilter
Microarray
genefilter
updated 9.6 years ago by
Dan Tenenbaum
★ 8.2k • written 9.6 years ago by
Kee Pang SOH
▴ 10
0
votes
3
replies
1.2k
views
Non-Specific Filtering with "nsFilter" Question
probe
genefilter
PROcess
probe
genefilter
PROcess
updated 9.9 years ago by
James W. MacDonald
59k • written 9.9 years ago by
zeynep özkeserli
▴ 160
0
votes
3
replies
1.4k
views
How can I remove control probesets from the expressionset object in gene expression analysis with Affy Human Gene 1.0ST microarray
Microarray
Annotation
Normalization
GO
probe
genefilter
affy
limma
oligo
Microarray
GO
updated 10.0 years ago by
Juan Fernández Tajes
▴ 190 • written 10.0 years ago by
James W. MacDonald
59k
0
votes
1
reply
943
views
How can I remove control probesets from the expressionset object in gene expression analysis with Affy Human Gene 1.0ST microarray
Microarray
Normalization
probe
genefilter
limma
oligo
Microarray
Normalization
probe
updated 10.0 years ago by
James W. MacDonald
59k • written 10.0 years ago by
Juan Fernández Tajes
▴ 190
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Comment: performing the differential binding in ChIP-seq
by
ATpoint
★ 1.2k
Cross-posted https://www.biostars.org/p/9524012/#9524012
Comment: Transcript-level differential expression using DESeq2
by
Ekta
• 0
Yes, i tried that. I used salmon bootstraps also for the same RNAseq data to run Swish and performed the Differential transcript expressio…
Comment: how to make a group to apply the data to CAMERA
by
Akira
• 0
Thank you so much for your quick answer!! I will look into them! I appreciate your kind support.
Comment: performing the differential binding in ChIP-seq
by
Bogdan
▴ 640
I am asking the question because we have two sets of ChIP-seq data for a histone mark (lets' say H3K4me1) that were generated with : <> an…
Comment: performing the differential binding in ChIP-seq
by
Bogdan
▴ 640
Thank you. Yes, DiffBind might be a good choice shall we have replicates per sample. Another choice is MA-norm2. Any other well-tested sug…
Votes
Answer: how to make a group to apply the data to CAMERA
Answer: how to make a group to apply the data to CAMERA
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