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13
votes
35
replies
13k
views
RDAVIDWebService Error 301: Moved Permanently
rdavidwebservice
david
updated 3.8 years ago by
gevermalc
• 0 • written 6.9 years ago by
Vivek.b
▴ 100
0
votes
17
replies
1.3k
views
Defining Weights in marrayNorm.
Microarray
Microarray
updated 18.8 years ago by
Yuk Fai Leung
▴ 100 • written 18.8 years ago by
Josef Walker
▴ 20
0
votes
20
replies
3.2k
views
ttest or fold change
updated 18.4 years ago by
Garrett Frampton
▴ 20 • written 18.5 years ago by
Jason Hipp
▴ 40
2
votes
27
replies
2.2k
views
CRISPRseek package: be aware that as of Oct 2015, CRISPRseek works best for for regions < 200kb
crisprseek
sgrna
crispr
cas9
R
6.6 years ago • updated 6.5 years ago
alexgraehl
▴ 20
0
votes
13
replies
1.4k
views
two color arrays normalization
limma
limma
updated 13.3 years ago by
Jenny Drnevich
★ 2.0k • written 13.3 years ago by
Giusy Della Gatta
▴ 110
0
votes
18
replies
2.1k
views
Genbank to Unigene IDs
annotate
AnnBuilder
annotate
AnnBuilder
updated 18.1 years ago by
Kane, David
▴ 10 • written 18.1 years ago by
Gordon Smyth
45k
0
votes
22
replies
1.8k
views
'x' has "out of limits" views ,Issue with the file size!! Compareequence function is not working
compilation error
filesize
bioconductor
4.8 years ago • updated 4.7 years ago
susobhanbaidya
• 0
1
vote
16
replies
2.2k
views
Error: could not find function "dba"
software error
diffbind
dba
5.6 years ago • updated 5.5 years ago
mmarins
• 0
1
vote
24
replies
3.0k
views
GenomicAlignments - extracting sequence signatures from bam file
bam file
HIV
cytosine
4.6 years ago
achaillon
• 0
6
votes
17
replies
11k
views
WGCNA for RNA-Seq Sample Set, Outliers, and Spearman correlation
WGCNA
Sample Size
Outliers
updated 6.7 years ago by
mh.manoj
• 0 • written 7.3 years ago by
brohawndg
▴ 80
11
votes
25
replies
8.8k
views
readCufflinks problem with extdata
cummerbund
updated 4.7 years ago by
markus.ball
▴ 10 • written 4.9 years ago by
biakemi
▴ 40
1
vote
12
replies
2.1k
views
Rcytoscape Rstudio Error in xml.rpc(obj@uri, "Cytoscape.version") : Problems
software error
rcytoscape
xml
updated 7.5 years ago by
drsuuzzz
• 0 • written 7.6 years ago by
alessandro brozzi
▴ 120
0
votes
16
replies
1.7k
views
Finding GO leaf nodes for an ontology - which package?
updated 14.8 years ago by
Seth Falcon
★ 7.4k • written 14.8 years ago by
Tim Smith
★ 1.1k
0
votes
27
replies
1.7k
views
summarizeOverlaps mode ignoring inter feature overlaps
9.1 years ago
Thomas Girke
★ 1.7k
0
votes
10
replies
1.1k
views
ABPkgBuilder Error;
16.8 years ago
Barry Henderson
▴ 250
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
4
votes
21
replies
2.2k
views
RMA normaliztion using XPS
normalization
xps
updated 7.1 years ago by
cstrato
★ 3.9k • written 7.1 years ago by
dhwani.dholakia
• 0
0
votes
16
replies
1.4k
views
Affy: Present calls in an eset
updated 18.6 years ago by
Stephen Henderson
★ 1.0k • written 18.6 years ago by
Arne.Muller@aventis.com
▴ 620
3
votes
12
replies
2.7k
views
ChIPQC failling when run ChIPQC() over 6 samples
chipqc
updated 4.8 years ago by
Thomas Carroll
▴ 400 • written 7.2 years ago by
atisou
• 0
2
votes
15
replies
1.9k
views
BiSeq trimClusters FDR.loc confusion
biseq
fdr
data
results
7.1 years ago • updated 7.0 years ago
mnaymik
▴ 10
0
votes
10
replies
1.5k
views
how to revert to an older limma version?
14.9 years ago • updated 14.8 years ago
Maya Bercovich
▴ 50
0
votes
10
replies
1.7k
views
read.GenePix not opening connection
Microarray
marray
Microarray
marray
updated 16.9 years ago by
Tony Kowal
▴ 20 • written 16.9 years ago by
Amy Mikhail
▴ 460
0
votes
17
replies
1.3k
views
Coverage by base
Coverage
Coverage
10.6 years ago
rohan bareja
▴ 200
0
votes
12
replies
1.3k
views
KEGGSOAP
KEGGSOAP
KEGGSOAP
updated 16.2 years ago by
Seth Falcon
★ 7.4k • written 16.2 years ago by
Dr.Mayhaus Manuel
▴ 30
4
votes
15
replies
1.8k
views
Converting Synapter object output into a MSnbase-compatible object
synapter
msnbase
6.8 years ago • updated 6.7 years ago
diana.schreier
• 0
1
vote
21
replies
1.9k
views
Rsubread stopping half-way through align
rsubread
5.9 years ago • updated 5.8 years ago
Campbell.1933
• 0
6
votes
22
replies
2.5k
views
Oligo package: paCalls questions
microarray
oligo
updated 7.0 years ago by
cstrato
★ 3.9k • written 7.0 years ago by
whyuen
▴ 20
1
vote
13
replies
3.7k
views
ERROR: dependency 'GO.db' is not available for package 'systemPipeR'
software error
5.8 years ago
phpaul2010
• 0
0
votes
8
replies
898
views
uppercase & lowercase
updated 15.0 years ago by
Saroj Mohapatra
▴ 450 • written 15.0 years ago by
D.Enrique ESCOBAR ESPINOZA
▴ 360
0
votes
8
replies
2.7k
views
GSVA: problem with chip annotation
gsva
updated 7.5 years ago by
Robert Castelo
★ 2.9k • written 7.6 years ago by
q017mm
• 0
0
votes
11
replies
3.8k
views
ChAMP input: Beta Matrix?
champ
dmr analysis
updated 16 months ago by
坤
• 0 • written 6.2 years ago by
Shicheng Guo
• 0
0
votes
9
replies
2.3k
views
rhdf5 32-bit unsigned int issue
rhdf5
bug
updated 6.9 years ago by
Bernd Fischer
▴ 550 • written 6.9 years ago by
wrob311
• 0
0
votes
12
replies
1.9k
views
testing GO categories with Fisher's exact test.
GO
Category
GO
Category
updated 18.3 years ago by
James W. MacDonald
59k • written 18.3 years ago by
Nicholas Lewin-Koh
▴ 430
0
votes
21
replies
3.7k
views
unable to readImage using EBImage package
EBImage
EBImage
updated 10.2 years ago by
Nurdiyanah Jambari
▴ 90 • written 10.2 years ago by
Guest User
★ 12k
0
votes
14
replies
1.2k
views
got 0 significant differential bound (DB)
diffbind
5.0 years ago • updated 4.9 years ago
mforoo1
• 0
5
votes
14
replies
3.8k
views
gene symbols in Gviz
Gviz
6.9 years ago
Bogdan
▴ 640
0
votes
10
replies
1.4k
views
Getting rawdata for TMM normalization
normalization
5.9 years ago
humberto_munoz
• 0
0
votes
10
replies
2.9k
views
GOStat and multiple testing
GO
GOstats
GO
GOstats
updated 17.8 years ago by
A.J. Rossini
▴ 810 • written 17.8 years ago by
Arne.Muller@aventis.com
▴ 620
0
votes
13
replies
4.6k
views
gage pathways enrichment analysis
gage
pathways
kegg
updated 7.5 years ago by
Luo Weijun
★ 1.5k • written 7.5 years ago by
francesca.defilippis
▴ 80
0
votes
11
replies
1.2k
views
Complete variant toolbox: gmapR/VariantTools/VariantAnnotation
VariantAnnotation
Annotation
VariantAnnotation
VariantTools
VariantAnnotation
Annotation
updated 8.5 years ago by
Valerie Obenchain
★ 6.7k • written 8.5 years ago by
Thomas Girke
★ 1.7k
0
votes
10
replies
740
views
Lumi warning and question
14.8 years ago • updated 14.7 years ago
Ingrid H. G. Østensen
▴ 690
2
votes
30
replies
2.5k
views
ggbio 1.12.0 autoplot() with txdb example is broken
TranscriptDb
TranscriptDb
updated 8.1 years ago by
Tengfei Yin
▴ 490 • written 8.1 years ago by
Leonardo Collado Torres
▴ 980
0
votes
9
replies
1.1k
views
Pooling in microarray studies
updated 18.6 years ago by
Tan, MinHan
▴ 180 • written 18.6 years ago by
Wiesner Vos
▴ 50
1
vote
9
replies
2.3k
views
Question about ChiPseeker: plot other values in plotAvgProf2
ChiPseeker
updated 6.6 years ago by
Guangchuang Yu
★ 1.2k • written 6.6 years ago by
francesca casalino
▴ 50
0
votes
8
replies
858
views
info su illumina
updated 16.3 years ago by
Lynn Amon
▴ 110 • written 16.3 years ago by
Alberto Goldoni
▴ 360
2
votes
13
replies
1.7k
views
problems filtering antigenomic probes from HTA 2.0
pd.hta.2.0
R
5.8 years ago • updated 5.3 years ago
s.munster
▴ 40
1
vote
10
replies
1.4k
views
GEOquery
updated 13.8 years ago by
Sean Davis
21k • written 13.9 years ago by
Harpreet Saini
▴ 20
0
votes
10
replies
1.6k
views
Rsubread on Cygwin - error due to gcc ... -D MACOS - why?
Rsubread
updated 5.8 years ago by
Wei Shi
★ 3.4k • written 5.9 years ago by
MWSchmid
• 0
0
votes
8
replies
887
views
error message in gcrma
cdf
affy
gcrma
matchprobes
plier
cdf
affy
gcrma
matchprobes
plier
updated 16.0 years ago by
Seth Falcon
★ 7.4k • written 16.0 years ago by
Mohammad Esad-Djou
▴ 520
0
votes
8
replies
866
views
Problem creating a contrast matrix
updated 14.9 years ago by
James W. MacDonald
59k • written 14.9 years ago by
Siarhei Manakou
▴ 100
1,000 results • Page
1 of 20
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Replies
Comment: CPM after RUVseq
by
James W. MacDonald
59k
Also, you might be confused about something. CPM is counts/million counts, which *uses library size to scale normalize* and logCPM is just…
Comment: CPM after RUVseq
by
James W. MacDonald
59k
You shouldn't use CPM or logCPM for any of the steps! To use `RUVr` you need to fit a preliminary model using `edgeR`, which takes counts a…
Comment: CPM after RUVseq
by
Jess
• 0
Thank you James! It hadn't occurred to me to input CPM rather than logCPM which is why my df$NormalizedCounts didn't exceed 17ish in valu…
Answer: RPX PXDataset error
by
Laurent Gatto
1.5k
- From the URL in the error, it looks like you have the latest (or a recent) `rpx` version. It is generally recommended to add the output o…
Answer: Package name already exists due to previous issue
by
shepherl
3.1k
This has been resolved. There needed to be a manual intervention by the core team to remove the old issue from the issue tracker database.…
Votes
Answer: CPM after RUVseq
Comment: Merging two plated in R
Answer: Merging two plated in R
Answer: Merging two plated in R
A: Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
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