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masigpro
•
reset
0
votes
1
reply
390
views
T.fit function of maSigPro returns error message
maSigPro
7 months ago
hanna.g
• 0
0
votes
0
replies
267
views
maSigPro drug concentration
maSigPro
7 months ago
jiawen
• 0
0
votes
5
replies
5.7k
views
masigpro Error in terms.formula(formula, data = data) : '.' in formula and no 'data' argument
masigpro
updated 8 months ago by
Tatsuya
• 0 • written 8.9 years ago by
john
▴ 120
0
votes
3
replies
841
views
MaSigPro Single Series Analysis
maSigPro
updated 13 months ago by
guang-hui
• 0 • written 4.2 years ago by
dorothy.mitchell
• 0
0
votes
0
replies
421
views
maSigPro visualizing individually each plot from each cluster
plot
maSigPro
Clustering
20 months ago
oseias.rf.junior
• 0
1
vote
0
replies
487
views
Normalization RNA-seq data maSigPro
maSigPro
20 months ago
W.a.m.dekker
▴ 10
0
votes
1
reply
806
views
t.fit stops in masigpro while running RNA seq data
RNASeqData
maSigPro
3.0 years ago
subashika
• 0
0
votes
1
reply
951
views
maSigPro see.genes expression profile graphs. Change color and label text size
maSigPro
graph
updated 3.4 years ago by
Mª José Nueda
▴ 90 • written 3.4 years ago by
Itzel
• 0
0
votes
2
replies
1.3k
views
maSigPro see.genes function gives "invalid 'times' argument" error for single time course data
masigpro
3.9 years ago • updated 3.3 years ago
daw277
• 0
0
votes
2
replies
790
views
maSigPro: PlotGroups function only plots one out of six time points
maSigPro
PlotGroups
updated 3 months ago by
QINYAN
• 0 • written 3.7 years ago by
Olof.rundquist
• 0
0
votes
2
replies
827
views
maSigPro Influential genes, step.methods and gene removal
maSigPro
TimeCourse
updated 3.9 years ago by
Michael Love
41k • written 3.9 years ago by
DcL-A
• 0
0
votes
1
reply
1.3k
views
glm.fit problem with maSigPro
software error
maSigPro
Nueda
RNAseq
updated 5.2 years ago by
James W. MacDonald
65k • written 5.2 years ago by
lalamig
• 0
1
vote
3
replies
1.2k
views
masigpro: could not find function "negative.binomial"
masigpro
5.4 years ago
nicolas.descostes
▴ 20
0
votes
6
replies
1.7k
views
[maSigPro] two color array analysis of time series in different cell lines.???
limma
maSigPro
limma
maSigPro
updated 5.7 years ago by
sbbinfo90
• 0 • written 10.5 years ago by
neeraj rana
▴ 60
0
votes
1
reply
1.5k
views
maSigPro: error using see.genes()
masigpro
updated 6.1 years ago by
therealsisterdot
• 0 • written 7.0 years ago by
valentine.murigneux
• 0
4
votes
5
replies
2.2k
views
MasigPro and estimation of theta for negative binomial law
R
masigpro
edgr
rnaseq
negative binomial model
6.3 years ago
nicolas.hipp
▴ 20
3
votes
7
replies
5.7k
views
Limma PlotMDS: what values should be used?
limma
edger
plotmds
tmm
masigpro
6.4 years ago
dacaba.92
▴ 10
0
votes
0
replies
1.1k
views
Understanding NextMaSigPro, regression fit and stepwise regression
timecourse
rnaseq
masigpro
6.4 years ago
jelisaveta.jeki.djordjevic
• 0
0
votes
0
replies
933
views
How to specify covariates in maSigPro analysis (like limma)
masigpro
covariates
limma
differential expression
time-course
6.6 years ago
veersingh.marwah
• 0
0
votes
0
replies
920
views
Iso-maSigPro errors in IsoModel and PodiumChange
masigpro
6.6 years ago
xin.zhou
• 0
1
vote
1
reply
904
views
Are significant genes ordered in maSigPro?
masigpro
rnaseq
updated 6.9 years ago by
James W. MacDonald
65k • written 6.9 years ago by
itspilipineiro
• 0
0
votes
0
replies
6.3k
views
maSigPro error PlotGroups [Error: (list) object cannot be coerced to type 'double']
masigpro
error
PlotGroups
6.9 years ago
nicolas.descostes
▴ 20
0
votes
0
replies
974
views
Block design for maSigPro
masigpro
timecourse
7.7 years ago
sanj
▴ 20
0
votes
2
replies
2.0k
views
maSigPro genes from clusters
masigpro
clustering
updated 7.8 years ago by
Mª José Nueda
▴ 90 • written 7.9 years ago by
ls299
• 0
0
votes
0
replies
799
views
maSigPro groups comparisons
masigpro
7.8 years ago
ls299
• 0
0
votes
1
reply
1.3k
views
maSigPro edesign and error message
masigpro
8.1 years ago
simonjean434
▴ 10
0
votes
0
replies
1.0k
views
MaSigPro - pre-filtering of genes
MaSigPro
8.2 years ago
GFM
▴ 20
0
votes
1
reply
1.6k
views
Microarray time-course clustering, using "hclust" in masigPro
clustering
hclust
maSigPro
updated 8.2 years ago by
efejiroe
• 0 • written 8.7 years ago by
dimitri.leonid.lindenwald
▴ 50
0
votes
1
reply
3.3k
views
maSigPro help- p. vector error
RNASeq
maSigPro
a4
RNASeq
maSigPro
a4
updated 8.5 years ago by
Mª José Nueda
▴ 90 • written 10.2 years ago by
Guest User
★ 13k
0
votes
2
replies
1.2k
views
row with zeros
maSigPro
min.obs
p.vector
updated 8.6 years ago by
Mª José Nueda
▴ 90 • written 8.6 years ago by
gmdc
• 0
0
votes
1
reply
1.1k
views
Paralelization of maSigPro
maSigPro
parallel
8.6 years ago
gmdc
• 0
0
votes
1
reply
1.6k
views
RNASeq time-course analysis with maSigPro: T.fit error when assessing multiple groups
rnaseq
masigpro
timecourse
9.0 years ago
Ryan Goosen
• 0
0
votes
1
reply
971
views
maSigPro dataset information
maSigPro
maSigPro
10.5 years ago
Guest User
★ 13k
0
votes
3
replies
1.4k
views
maSigPro and "vars" argument
maSigPro
maSigPro
updated 12.6 years ago by
Mª José Nueda
▴ 90 • written 12.6 years ago by
Andrea Grilli
▴ 240
0
votes
1
reply
1.8k
views
maSigPro and "subscript out of bounds"
Normalization
Regression
maSigPro
Normalization
Regression
maSigPro
updated 12.9 years ago by
Andrea Grilli
▴ 240 • written 12.9 years ago by
Valerie Obenchain
★ 6.8k
0
votes
0
replies
1.1k
views
maSigPro and "subscript out of bounds"
Normalization
Regression
maSigPro
Normalization
Regression
maSigPro
12.9 years ago
Andrea Grilli
▴ 240
0
votes
0
replies
1.2k
views
[maSigPro] Splitting data - how?
maSigPro
maSigPro
13.0 years ago
Valerie Obenchain
★ 6.8k
0
votes
1
reply
1.2k
views
Paired Data in maSigPro
maSigPro
maSigPro
13.4 years ago • updated 13.3 years ago
Mike Walter
▴ 230
0
votes
3
replies
1.3k
views
[maSigPro] T.fit - Error in rownames(coefficients)
maSigPro
maSigPro
updated 13.5 years ago by
Mª José Nueda
▴ 90 • written 13.5 years ago by
boczniak767
▴ 720
0
votes
1
reply
1.2k
views
clustering of microarray time-series data
Microarray
Clustering
limma
maSigPro
Microarray
Clustering
limma
maSigPro
updated 13.5 years ago by
avehna
▴ 240 • written 13.5 years ago by
boczniak767
▴ 720
0
votes
1
reply
1.6k
views
Design matrix for time course analysis with maSigPro
GLAD
maSigPro
GLAD
maSigPro
updated 13.9 years ago by
Wolfgang Huber
★ 13k • written 13.9 years ago by
Matthias Boeck
▴ 10
0
votes
1
reply
1.7k
views
[maSigPro] Error in T.fit - NAs introduced by coercion
maSigPro
maSigPro
updated 14.0 years ago by
Mª José Nueda
▴ 90 • written 14.0 years ago by
boczniak767
▴ 720
0
votes
3
replies
1.4k
views
[maSigPro] How to analyze 2-colour microarrays?
Normalization
limma
maSigPro
Normalization
limma
maSigPro
updated 14.0 years ago by
Mª José Nueda
▴ 90 • written 14.0 years ago by
boczniak767
▴ 720
0
votes
1
reply
1.3k
views
Fwd: maSigPro - NA values for coefficient estimates - Is a polynomical fit recommended for my data?
Annotation
limma
maSigPro
a4
Annotation
limma
maSigPro
a4
updated 14.5 years ago by
jeremy wilson
▴ 150 • written 14.5 years ago by
Ana Conesa
▴ 340
0
votes
0
replies
1.2k
views
maSigPro - NA values for coefficient estimates - Is a polynomical fit recommended for my data?
limma
maSigPro
a4
limma
maSigPro
a4
14.5 years ago
jeremy wilson
▴ 150
0
votes
1
reply
1.3k
views
maSigPro error in getting a design matrix
maSigPro
a4
maSigPro
a4
14.5 years ago
lohith madireddy
▴ 40
0
votes
2
replies
1.3k
views
question about p-values in maSigPro
affy
maSigPro
affy
maSigPro
14.8 years ago
Dick Beyer
★ 1.4k
0
votes
3
replies
1.3k
views
maSigPro and EMV no longer available for windows.
maSigPro
maSigPro
updated 14.9 years ago by
Ana Conesa
▴ 340 • written 14.9 years ago by
Giulio Di Giovanni
▴ 540
0
votes
0
replies
1.4k
views
maSigPro time problem (2.trial)
maSigPro
maSigPro
14.9 years ago
Klaus-Peter Pleissner
▴ 70
0
votes
1
reply
1.2k
views
MaSigPro
maSigPro
maSigPro
updated 16.5 years ago by
Mª José Nueda
▴ 90 • written 16.5 years ago by
Narinder Singh Sahni
▴ 50
50 results • Page
1 of 1
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Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
James W. MacDonald
65k
You will need to show some reproducible code for anybody to track this down. Please note that `DESeq2` has been used by thousands of people…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
Alexandre
• 0
My code for the sessionInfo() . If the pictures are too big, I will downsize them. THank you again for reading my post ! ```r > sessionInf…
Comment: Reproducibility issue with scran together with lapply and BiocParallel
by
ATpoint
★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Votes
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
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