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Votes
0
votes
2
replies
1.5k
views
issue retrieving metadata after psetdiff function
grangeslist
granges
8.0 years ago
andreag1987
• 0
1
vote
0
replies
1.5k
views
ClusterProfiler Annotation Problem
ClusterProfiler
8.0 years ago
papanton
▴ 10
2
votes
2
replies
2.4k
views
BiomaRT URLs down? 404 Not Found
biomart
bioconductor
support.bioconductor.org
biocinstaller
install
8.0 years ago
n.pantelireis16
• 0
0
votes
2
replies
1.5k
views
error when using M-values in ChAMP
ChAMP
updated 22 months ago by
hortense96
• 0 • written 8.0 years ago by
a.mcneill
• 0
0
votes
6
replies
2.8k
views
Combining two MSnSet
msnbase
8.3 years ago • updated 8.0 years ago
kamal.fartiyal84
▴ 10
3
votes
4
replies
10k
views
Gene-gene correlation analysis with RNA-seq
edgeR
updated 24 months ago by
JG13
• 0 • written 12.6 years ago by
Makis Motakis
▴ 30
0
votes
1
reply
1.7k
views
Rsubread Read Bam and filter reads by TAG field
Rsubread
featurecounts
featurerequest
8.0 years ago
alessandro.pastore
▴ 20
2
votes
1
reply
2.8k
views
Error in DESeq2 plotMA from object subset
deseq2
maplot
subset
updated 8.0 years ago by
Michael Love
43k • written 8.0 years ago by
rbronste
▴ 60
0
votes
1
reply
1.2k
views
Affy ClariomD human transcriptome annotation
affy
annotation
pd.clariom.d.human
updated 8.0 years ago by
James W. MacDonald
68k • written 8.0 years ago by
anitabaery
• 0
1
vote
2
replies
2.0k
views
DESeq2 design & model matrix not full rank - am I nesting correctly?
deseq2
model matrix
experimental design
multiple factor design
updated 8.0 years ago by
Michael Love
43k • written 8.0 years ago by
amye107
• 0
1
vote
1
reply
1.7k
views
Including taxa names in heatmap in metagenomeseq
gut microbiome
heatmap
metagenomeseq
updated 8.0 years ago by
Joseph Nathaniel Paulson
▴ 280 • written 8.0 years ago by
arguello.rguez
• 0
1
vote
2
replies
2.3k
views
Gviz: Add label/title to GenomeAxisTrack
Gviz
celegans
updated 8.0 years ago by
Robert Ivanek
▴ 750 • written 8.0 years ago by
alex.gos90
▴ 10
0
votes
1
reply
3.8k
views
DESeq2 design model/contrasts question 3 level condition
deseq2
model design
differential gene expression
experimental design
updated 8.0 years ago by
Michael Love
43k • written 8.0 years ago by
L_K
• 0
0
votes
0
replies
1.4k
views
I need to measure distance of PAR-CLIP data to RNA regions
parclip
bedtools
bed files
gff3
8.0 years ago
linuxborg2
• 0
0
votes
2
replies
1.3k
views
DESeq2, no significantly DE genes
deseq2
differential expression
adjusted pvalue
updated 8.0 years ago by
Michael Love
43k • written 8.0 years ago by
A
▴ 60
1
vote
2
replies
4.5k
views
edgeR::cpm - Doesn't work on DGEList after update
edger
updated 8.0 years ago by
Gordon Smyth
53k • written 8.0 years ago by
nilssonp386
• 0
3
votes
11
replies
5.9k
views
GEOquery http:// url error
geoquery
error
getgeo
microarray
geo
updated 8.0 years ago by
Sean Davis
21k • written 8.8 years ago by
jblack29
• 0
0
votes
1
reply
2.1k
views
GEOquery getGEO 404
geoquery
geoquery error message
updated 8.0 years ago by
Sean Davis
21k • written 8.0 years ago by
anthony.nash
▴ 20
3
votes
5
replies
7.1k
views
Tutorial:
Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R
GEO
geoquery
geoquery error message
Tutorial
8.0 years ago
martinguerrerog89
▴ 20
0
votes
4
replies
2.9k
views
GenVisR- cnSpec CNV plot
GenVisR
8.0 years ago
daijieqiong
▴ 10
1
vote
4
replies
2.2k
views
Genomic Features UCSC refseq genes "Download the knownGene table ... Error: Bad Request"
genomicfeatures
updated 8.0 years ago by
Michael Lawrence
★ 11k • written 8.0 years ago by
james.dalgleish
▴ 30
1
vote
4
replies
2.2k
views
Normalized counts after fitting linear model with batch effects - edgeR
edger
batch effect
normalized counts
updated 8.0 years ago by
Ryan C. Thompson
★ 7.9k • written 8.0 years ago by
Yahan
• 0
2
votes
1
reply
1.4k
views
How can I remove the ellipsis and get the complete sequence and results?
keggrest
biostrings
updated 8.0 years ago by
shepherl
4.3k • written 8.0 years ago by
xieduo
▴ 10
0
votes
4
replies
1.2k
views
how can I annotate some of my genes
biomart
r
updated 8.0 years ago by
Mike Smith
★ 6.6k • written 8.0 years ago by
Bioinformatics
▴ 30
0
votes
4
replies
1.8k
views
how can I configure my proxy to get connected to biomart
biomart
connection
host
8.0 years ago
Bioinformatics
▴ 30
1
vote
1
reply
1.1k
views
Nested design with unbalanced groups
deseq2
updated 8.0 years ago by
Michael Love
43k • written 8.0 years ago by
stevenn.volant
• 0
0
votes
0
replies
2.2k
views
ATAC-seq: Sample size when pooling sample reads to call peaks
atac-seq
sample size
Peak
Normalize
8.0 years ago
jaime.alvarez.benayas
• 0
0
votes
1
reply
4.6k
views
DESeq2 contrast with list no longer works: all elements of the contrast as a list of length 2 should be elements of 'resultsNames(object)'
deseq2
updated 8.0 years ago by
Michael Love
43k • written 8.0 years ago by
sxv
• 0
1
vote
1
reply
4.0k
views
How can I extract the human paralogues from a list of genes using BioMart?
BioMart
paralog genes
updated 8.0 years ago by
Mike Smith
★ 6.6k • written 8.0 years ago by
Jack
• 0
0
votes
0
replies
1.3k
views
Sequence composition effect
sequencing
rnaseq_analysis
8.0 years ago
alemutak
• 0
0
votes
5
replies
1.3k
views
"mogene10stv1probe" probe_length issue
bioconductor
affymetrix mouse gene arrays
mouse_gene st1.0
8.0 years ago
debajyoti.bionova
• 0
4
votes
4
replies
1.4k
views
edgeR: error ih summary(decideTests(lrt))
edgeR
updated 8.0 years ago by
Gordon Smyth
53k • written 8.0 years ago by
Pingu
• 0
1
vote
5
replies
3.3k
views
DiffBind does not run in parallel
diffbind
parallel
biocparallel
updated 8.0 years ago by
Rory Stark
★ 5.2k • written 8.0 years ago by
eggrandio
• 0
0
votes
0
replies
813
views
Is there any database that correlates annotation of a set of genes or gene ontology with the upstream regulatory genes (e.g. transcription factor)?
gene regulatory network
8.0 years ago
johnnytam100
• 0
0
votes
1
reply
1.6k
views
index of probes in Illumina Infinium MethylationEPIC BeadChip
probe
8.0 years ago
mcarmel
• 0
0
votes
1
reply
878
views
Could I search a list of keywords on google scholar or other journal databases?
googlescholar
8.0 years ago
johnnytam100
• 0
1
vote
7
replies
3.1k
views
DESeq2 experimental design, 2 controls and 2 treated
Deseq2
updated 8.0 years ago by
Michael Love
43k • written 8.0 years ago by
Mike
▴ 10
2
votes
0
replies
3.1k
views
WGCNA package : identification of hub genes
wgcna
8.0 years ago
bharata1803
▴ 60
1
vote
3
replies
1.9k
views
how to get intron with ensembldb. package?
granges
ensembldb
GenomicFeatures
8.0 years ago
alessandro.pastore
▴ 20
0
votes
0
replies
839
views
getGEO download error
bioconductor
8.0 years ago
comeherewinter
• 0
0
votes
1
reply
1.9k
views
Status 1 error when using msaPrettyPrint() to make pdfs with MsaAAMultipleAlignment
msaprettyprint()
latex
pdf
msa
updated 8.0 years ago by
UBod
▴ 300 • written 8.0 years ago by
Cecil
• 0
0
votes
0
replies
1.3k
views
problems with using cummeRbund
cummerbund
8.0 years ago
sneha108ss
• 0
3
votes
4
replies
1.7k
views
Future plans for the new GPos class
genomicranges
gpos
updated 8.0 years ago by
Hervé Pagès
16k • written 8.0 years ago by
maltethodberg
▴ 180
0
votes
7
replies
2.6k
views
error when installing beachmat
beachmat
scater
updated 8.0 years ago by
galib36
▴ 10 • written 8.1 years ago by
j.xu3
• 0
0
votes
1
reply
1.5k
views
News:
List of Deprecated Packages for Bioc3.7
package updates
deprecate
News
8.0 years ago
shepherl
4.3k
0
votes
1
reply
1.2k
views
Diffbind: How to compare the DBs called with and without a blocking factor
diffbind
differential binding analysis
blocking
updated 8.0 years ago by
Rory Stark
★ 5.2k • written 8.1 years ago by
zhangly811
• 0
2
votes
4
replies
2.4k
views
DiffBind MA plot
diffbind
maplot
updated 8.0 years ago by
Rory Stark
★ 5.2k • written 8.0 years ago by
grundelphine
• 0
1
vote
1
reply
1.5k
views
object 'feaMeasurements' not found for MSstats
R
msstats
updated 8.0 years ago by
thx223
• 0 • written 8.1 years ago by
doomloop1
▴ 10
0
votes
1
reply
1.9k
views
Error in .Primitive("c")(<S4 object of class "IRanges">) : could not find symbol "recursive" in environment of the generic function running msa
msa
iranges
updated 8.0 years ago by
UBod
▴ 300 • written 8.0 years ago by
mtorresp1975
• 0
2
votes
4
replies
2.0k
views
DiffBind report and MA-plot DB difference
diffbind
differential binding analysis
R
report
updated 8.0 years ago by
Rory Stark
★ 5.2k • written 8.0 years ago by
hlsz.laszlo
• 0
46,735 results • Page
287 of 935
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Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list'
by
varying.mastodon.isyn
• 0
Oh, that error! I remember wrestling with that one for hours when I was first learning Python. Turns out I was trying to use a list itself …
Comment: Confirm that OpenStats will not be archived (pryr dependency)
by
Marina
• 0
Thank you!
Comment: AnnotationForge makeOrgPackage rsqlite_send_query error
by
ansley.r.burtch
• 0
Hi! I am sure you are well into your career now and haven't worked on this for a while, but I wanted to let you know this is still helping …
Comment: limpa analysis advice
by
Gordon Smyth
53k
I prefer for limpa to work on precursor intensities, because my understanding is that precursors are the basic unit of identification and q…
Answer: Confirm that OpenStats will not be archived (pryr dependency)
by
shepherl
4.3k
As long as OpenStats is building cleanly and all needed stated dependencies are on CRAN or Bioconductor, OpenStats will not be archived. I…
Votes
A: DESeq2 - VST eliminates zero values
Comment: Normalise to a housekeeping gene in DESEq2
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C: AnnotationForge makeOrgPackage rsqlite_send_query error
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