Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
3
votes
6
replies
242
views
Surrogate variable analysis for paired RNA seq experiment
RUVSeq
sva
17 days ago
nhaus
▴ 30
2
votes
6
replies
359
views
How to make boxplot with pairwise and overall p value from Limma
t.test
boxplot
limma
anova
19 days ago
Chris
• 0
2
votes
2
replies
152
views
[DiffBind] Obtaining normalization factors
DiffBind
15 days ago • updated 12 days ago
Henry
▴ 10
1
vote
3
replies
823
views
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
clusterProfiler
RNASeq
updated 4 days ago by
Guangchuang Yu
★ 1.2k • written 14 months ago by
ruiqi.li
▴ 10
1
vote
13
replies
320
views
Trying to use enrichGO
clusterProfiler
GenomicDistributionsData
KEGG
6 days ago • updated 3 days ago
fernanda.backsouza
▴ 10
1
vote
5
replies
314
views
fgsea fork
fgsea
updated 29 days ago by
James W. MacDonald
65k • written 4 weeks ago by
yimjohns
• 0
1
vote
2
replies
131
views
Error in champ.load(): The following specified files do not exist
ChAMP
10 days ago
Sherin
• 0
1
vote
7
replies
1.7k
views
Error using champ.import
ChAMP
EPICv2
updated 11 days ago by
shilpa
• 0 • written 10 months ago by
medha.suman
• 0
1
vote
2
replies
191
views
significant difference of p-values with dream() after updating VariancePartition
variancePartition
10 days ago • updated 9 days ago
Le
• 0
0
votes
0
replies
80
views
DMRcate error need at least two non-NA values to interpolate
DNAMethylation
DMRcate
24 days ago
Macsue
• 0
0
votes
0
replies
89
views
flowDensity on a flowset
flowDensity
23 days ago
fredrikwallberg
• 0
0
votes
0
replies
54
views
Unlocking Potential: NURS FPX Strategies and Insights
levi
NURSFPX
ragene20sttranscriptcluster.db
ssrch
7 days ago
vaxahey107
• 0
0
votes
1
reply
543
views
CopywriteR output
CopywriteR
updated 22 days ago by
fer_talavera
• 0 • written 2.5 years ago by
Joshua
• 0
0
votes
0
replies
60
views
[ChIPseeker] Unable to perform gene ontology analysis
ChIPseeker
12 days ago
Henry
▴ 10
0
votes
4
replies
203
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
11 days ago • updated 8 days ago
lonn
• 0
0
votes
1
reply
119
views
Granges regionCounts not returning the expected number of entries
methylKit
23 days ago • updated 22 days ago
Modoc Kesner
▴ 10
0
votes
1
reply
139
views
compareCluster dotplot: how to modify the genesets order
DOSE
enrichplot
clusterProfiler
updated 14 days ago by
Guido Hooiveld
★ 3.9k • written 17 days ago by
Lucie
• 0
0
votes
0
replies
80
views
Syntaxt Error in IsorcorrectoR package with Molecule Info File
Syntaxerror
IsoCorrectoR
11 days ago
Maliha Tabassum
• 0
0
votes
1
reply
83
views
Input Question for deseq.r
RSeqAn
updated 10 days ago by
ATpoint
★ 4.0k • written 10 days ago by
Nina
• 0
0
votes
0
replies
97
views
ggtree tip label position (depth)
ggtree
19 days ago • updated 18 days ago
Roope
• 0
0
votes
1
reply
161
views
DESeq2 gives an error and R crashes
DESeq2
17 days ago • updated 16 days ago
Shefali
• 0
0
votes
0
replies
98
views
Warning while loading DEP package
DEP
updated 9 days ago by
shepherl
3.8k • written 9 days ago by
Namrata
• 0
0
votes
1
reply
115
views
Deseq2 Rlog transformation
DESeq2
updated 13 days ago by
ATpoint
★ 4.0k • written 14 days ago by
Sahar
• 0
0
votes
7
replies
355
views
Internet connection for Bioconductor packages in Rstudio in Iran...
No_internet_connection_Packages
Proxy
Bioconductor
GEOquery
Internet_connection_problem
29 days ago • updated 26 days ago
needNGS
• 0
0
votes
0
replies
117
views
LearnTaxa with custom Silva
DECIPHER
LearnTaxa
17 days ago
Eryn
• 0
0
votes
3
replies
233
views
A ComBat-seq issue: the covariates are confounded
ComBat-seq
sva
updated 9 days ago by
W. Evan Johnson
▴ 850 • written 16 days ago by
schlumbohm
• 0
0
votes
1
reply
146
views
No output from read.bismark with bismark cov.files
bsseq
methylation
updated 26 days ago by
James W. MacDonald
65k • written 27 days ago by
ja569116
• 0
0
votes
0
replies
79
views
queryDGIdb lexical error for some genes
lexicalerror
rDGIdb
DGIdb
json
17 days ago
Dennis
• 0
0
votes
2
replies
171
views
featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_get_next_read_BIN: Assertion `l_name < 256' failed. Aborted (core dumpe…
metaMSdata
5 days ago • updated 3 days ago
shuwangxinze1996
• 0
0
votes
0
replies
63
views
Enzyme Engineering
BioTIP
11 days ago
bocchemistry
• 0
0
votes
2
replies
240
views
Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
featureCounts
Rsubread
27 days ago • updated 9 days ago
isaac.vock
• 0
0
votes
3
replies
317
views
Statistical test
NewWave
written 4 months ago by
mario
• 0
0
votes
0
replies
48
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
GDCRNATools
TCGA
3 days ago
glaciya2018
• 0
0
votes
1
reply
501
views
Cibersort phenotype file
cibersort
deconvR
immune
updated 19 days ago by
ivorychan7777
• 0 • written 15 months ago by
609b0d25
• 0
0
votes
0
replies
44
views
Exon-exon Junction Analysis for Variable-length Exons
Rsubread
4 days ago
Dario Strbenac
★ 1.5k
0
votes
1
reply
105
views
what is the sampleFiles
chipseq
updated 12 days ago by
James W. MacDonald
65k • written 12 days ago by
zhulin
• 0
0
votes
0
replies
79
views
Cannot use `readVcf()` on a file created with `writeVcf()`
VariantAnnotation
16 days ago
Stevie Pederson
• 0
0
votes
0
replies
134
views
Why output of GSEA is not the same but inversed, when you have the same but inversed input data?
clusterProfiler
gseKEGG
23 days ago • updated 22 days ago
andromeda
• 0
0
votes
1
reply
328
views
Gene names from Matrix
BioCor
StarBioTrek
MatrixGenerics
updated 18 days ago by
Lluís Revilla Sancho
▴ 730 • written 6 months ago by
karmasstark
• 0
0
votes
0
replies
38
views
Differential splicing from SGSeq analysis
DEXSeq
SGSeq
4 days ago
Sara
• 0
0
votes
0
replies
80
views
Diffbind Error in socketConnection
DiffBind
Errorinsocketconnection
SpikeIn
12 days ago
Virangika
• 0
0
votes
2
replies
278
views
Error in if (nrow(peaks) > 0) { : argument is of length zero Calls: CopywriteR ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous> Execution h…
CopywriteR
CopyhelpeR
27 days ago • updated 22 days ago
fer_talavera
• 0
0
votes
8
replies
273
views
DESeq2 output used for PCA plot on R studio
DESeq2
RSTUDIO
PCAtools
updated 3 days ago by
swbarnes2
★ 1.3k • written 5 days ago by
Aaliya
• 0
0
votes
0
replies
71
views
I am trying to detect alternative splicing.
ASpli
8 days ago
Sebashish
• 0
44 results • Page
1 of 1
Recent ...
Replies
Comment: Why p value inconsistent when using different number of pathway score?
by
Chris
• 0
Hi Robert, if two conditions don't have hundreds of differential express genes ( in some conditions such as peripheral blood Alzheimer vs n…
Answer: Dominance Index for Shotgun Metagenomics Data
by
Leo Lahti
▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
pl23
• 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions
by
Michael Love
41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
Awards
• All
Popular Question
to
Leo Lahti
▴ 40
Scholar
to
James W. MacDonald
65k
Popular Question
to
shepherl
3.8k
Scholar
to
Michael Love
41k
Supporter
to
JKim
• 0
Locations
• All
Canada,
12 minutes ago
UPF, Barcelona, Spain,
27 minutes ago
India,
1 hour ago
Ireland,
2 hours ago
China,
2 hours ago
Traffic: 590 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6