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News:
Bioc2020 - Deadline for workshops/talk/poster proposals in two weeks!
bioconductor
bioc2020
event
conference
News
5.9 years ago
shepherl
4.3k
0
votes
7
replies
1.8k
views
tximeta doesn't work downloading the ref genome
deseq2
tximeta
tximport
rnaseq
5.9 years ago
rafaelsolersanblas
▴ 50
0
votes
1
reply
1.4k
views
ChIPSeeker - options(ChIPseeker.downstreamDistance = 500) seems not work
ChIPseeker
5.9 years ago
Guandong Shang
▴ 40
1
vote
2
replies
1.8k
views
For loop for DESeq2
loop
deseq2
rnaseq
updated 3.6 years ago by
chm
• 0 • written 5.9 years ago by
NeuroGeneticsBoy
▴ 10
0
votes
1
reply
1.4k
views
Suggestion for circlize package in R for plotting the datasets
Circlize
5.9 years ago
sinha.puja
▴ 10
0
votes
1
reply
632
views
DESeq2: basemean count
deseq2
updated 5.9 years ago by
Michael Love
43k • written 5.9 years ago by
Brian Smith
▴ 120
1
vote
2
replies
2.1k
views
How to create better separation in PCA plot
PCA plot
RNAseq
updated 5.9 years ago by
Kevin Blighe
★ 4.0k • written 5.9 years ago by
rajeshparmar4
▴ 10
1
vote
1
reply
2.6k
views
How to annotate the Affymetrix data HTA-2.0 with oligo
annotation
affy
normalization
updated 5.9 years ago by
Guido Hooiveld
★ 4.1k • written 5.9 years ago by
sheikhbeigali
• 0
0
votes
0
replies
1.2k
views
Job:
Postdoc/research scientist in bioinformatics, Lund, Sweden
machine learning
variation interpretation
Job
6.0 years ago • updated 5.9 years ago
mauno.vihinen
• 0
0
votes
1
reply
714
views
Mathematical View of Timmer Mean of M-values
edgeR
updated 5.9 years ago by
Gordon Smyth
53k • written 6.0 years ago by
xhilda.merkaj
• 0
1
vote
6
replies
3.5k
views
ChIPQC error: 'names' attribute [9] must be the same length as the vector [7]
software error
updated 5.9 years ago by
vermasrikant
• 0 • written 6.6 years ago by
sonyuna90
• 0
0
votes
0
replies
845
views
Loading 1000 g data: Error in `.rowNamesDF<-`(x, value = value): duplicate 'row.names' are not allowed
software error
5.9 years ago
lxiao63
• 0
1
vote
1
reply
638
views
Unable to load fabbia using R 3.6.2:Cannoy launch library(RcmdrPlugin.BiclustGUI)
software error
updated 5.9 years ago by
Martin Morgan
25k • written 5.9 years ago by
jlchandon
▴ 10
0
votes
0
replies
1.1k
views
cn.MOPS output - mean/median of what?
cn.MOPS
CNV
copy number
5.9 years ago
liorglic
▴ 10
0
votes
2
replies
971
views
arrayQualityMetrics R for outlier detection
microarray
outlier detection
updated 5.9 years ago by
Gordon Smyth
53k • written 6.0 years ago by
lily
▴ 20
3
votes
1
reply
1.8k
views
Query relating pathway enrichment analysis for DEGs using KEGG or any other database.
KEGG
R
offline
Pathway Enrichment
updated 5.9 years ago by
Gordon Smyth
53k • written 6.3 years ago by
omarrafiqued
▴ 50
6
votes
6
replies
6.4k
views
Finding enriched pathways from a gene list.
microarray
limma
kegg
ENTREZ
enrichment analysis
updated 5.9 years ago by
Gordon Smyth
53k • written 6.0 years ago by
omarrafiqued
▴ 50
9
votes
10
replies
2.5k
views
Mapping of GENE symbols into ENTREZ
limma
annotation
Gene
6.4 years ago • updated 5.9 years ago
omarrafiqued
▴ 50
2
votes
1
reply
6.4k
views
Is it possible to remove 3 batches categories using limma
limma
updated 5.9 years ago by
Michael Love
43k • written 5.9 years ago by
Matan G.
▴ 60
0
votes
2
replies
1.6k
views
Problem for loading Bioconductor package in R
Bioconductor
written 5.9 years ago by
araaaju
• 0
0
votes
0
replies
1.3k
views
metaDE R and RRA R
microarray
meta analysis
6.0 years ago
lily
▴ 20
1
vote
1
reply
1.1k
views
Rtracklayer fails to export TxDb as GFF3 without CDS
rtracklayer
updated 6.0 years ago by
Michael Lawrence
★ 11k • written 6.0 years ago by
alexis.weinreb
• 0
0
votes
4
replies
4.0k
views
extract TCGA barcodes and sample_type information from uuids
GenomicDataCommons
R
updated 4.4 years ago by
xiaofeiwang18266
▴ 60 • written 6.0 years ago by
gv
▴ 30
0
votes
1
reply
1.0k
views
digest and ps none zero exit status
Bioconductor installation
updated 6.0 years ago by
James W. MacDonald
68k • written 6.0 years ago by
nicholas.macknight
• 0
0
votes
1
reply
530
views
DESeq2: multiple factors, comparison of a main factor between samples with inconsistent magnitudes of gene expression changes
deseq2
updated 6.0 years ago by
Michael Love
43k • written 6.0 years ago by
jropa
▴ 10
0
votes
1
reply
1.4k
views
How to modify centromere depiction in Gviz IdeogramTrack?
Gviz
updated 6.0 years ago by
Robert Ivanek
▴ 750 • written 6.5 years ago by
Robert
▴ 10
2
votes
2
replies
1.7k
views
Microarray expression analysis
microarray
normalization
CEL.gz
updated 6.0 years ago by
James W. MacDonald
68k • written 6.0 years ago by
manuchandwadkar
• 0
0
votes
1
reply
1.3k
views
DiffBind MA plot annotate promoter regions with different colour
diffbind
chipseq
rorystark
updated 6.0 years ago by
Rory Stark
★ 5.2k • written 6.0 years ago by
bioinfouser2
▴ 10
1
vote
3
replies
1.8k
views
EdgeR - How to define a group when calculating BCV
edgeR
updated 6.0 years ago by
Yunshun Chen
▴ 900 • written 6.0 years ago by
viktoria.c.karlsson
• 0
2
votes
2
replies
2.3k
views
"S" bases on mapFromAlignments - counted or not?
genomicalignments
updated 6.0 years ago by
Hervé Pagès
16k • written 6.0 years ago by
lauren.fitch
• 0
1
vote
6
replies
3.4k
views
Rsamtools pileup function
Rsamtools
pileup
number of reads
updated 6.0 years ago by
Martin Morgan
25k • written 6.0 years ago by
mgray
▴ 10
6
votes
6
replies
2.0k
views
Design to analyze experiment with multiple samples from the same biological entity
rna-seq
design
linear model
glm
updated 6.0 years ago by
Steve Lianoglou
★ 13k • written 6.0 years ago by
tmms
• 0
0
votes
0
replies
1.2k
views
Job:
Research scientist in bioinformatics, Sweden
bioinformatics
data analysis
post doc
Job
6.0 years ago
mauno.vihinen
• 0
0
votes
0
replies
1.3k
views
RNAseq/miRNAseq normalization for calculating gene correlations, survival analysis, and exploratory graphing
limma
edger
voom
rnaseq
mirnaseq
6.0 years ago
atakanekiz
▴ 30
1
vote
4
replies
1.9k
views
How to obtain the two gene expression datasets from a dual channel GEO dataset?
dual-channel
GEO
gene-expression
updated 6.0 years ago by
Gordon Smyth
53k • written 6.0 years ago by
davide.chicco
• 0
0
votes
8
replies
2.5k
views
Question: GENESIS: assocTestSingle() is not giving any output; guessing that it is arising from GenotypeBlockIterator()
Genesis
6.0 years ago
alipka
▴ 10
2
votes
4
replies
1.8k
views
Help with Missing Gene from hg38
annotation
genome
hg38
TxDb.Hsapiens.UCSC.hg38.knownGene
BSgenome.Hsapiens.UCSC.hg38
updated 6.0 years ago by
kayla.interdonato
▴ 160 • written 6.0 years ago by
jam526
• 0
0
votes
1
reply
1.1k
views
DESeq2 with uneven group size
deseq2
updated 6.0 years ago by
Michael Love
43k • written 6.0 years ago by
Zohaib Anwar
• 0
0
votes
1
reply
1.1k
views
biomaRt package not working in R version3.6
software error
updated 6.0 years ago by
James W. MacDonald
68k • written 6.0 years ago by
Diaz.335
• 0
4
votes
4
replies
3.2k
views
biomaRt getSequence fails with genomic coordinates
biomart
getSequence
genomic coordinates
ENSEMBL
bug report
updated 6.0 years ago by
Mike Smith
★ 6.6k • written 6.0 years ago by
Ni-Ar
▴ 10
0
votes
4
replies
1.5k
views
Fix regions for bumphunter
bumphunter
DMR
methylation
minfi
6.0 years ago
i.s.brorson
• 0
0
votes
2
replies
1.4k
views
Bumphunter output "regions" of 1 probe (L =1)
DMR
bumphunter
EPIC chip
6.0 years ago
i.s.brorson
• 0
3
votes
4
replies
4.2k
views
lm.fit incompatible dimensions
oligo
arrayexpress
limma
updated 6.0 years ago by
Anna Woods
• 0 • written 7.0 years ago by
maxininfa
• 0
1
vote
1
reply
817
views
limma how to extract rest of output
limma
updated 6.0 years ago by
Steve Lianoglou
★ 13k • written 6.0 years ago by
jaqkleja
• 0
0
votes
1
reply
2.7k
views
RLE plot of DESeq2 normalisation / extract matrix of normalised counts from DESeqDataSet
deseq2
RLE
updated 6.0 years ago by
Michael Love
43k • written 6.0 years ago by
f_pardow
• 0
0
votes
0
replies
1.1k
views
News:
Bioc2020 - Registration - Call for abstracts for workshops/talks/poster - travel and caregiver scholarships
conference
bioconductor
event
bioc2020
News
6.0 years ago
shepherl
4.3k
1
vote
1
reply
1.2k
views
is something like method="wget" possible with BiocManager::install ?
BiocManager::install
download
updated 6.0 years ago by
Martin Morgan
25k • written 6.0 years ago by
lejeczek
▴ 10
0
votes
1
reply
595
views
The query to the BioMart webservice returned an invalid result: biomaRt expected a character string of length 1.
software error
updated 6.0 years ago by
Mike Smith
★ 6.6k • written 6.0 years ago by
frank007
• 0
1
vote
3
replies
1.1k
views
DESeq2 : Estimating dispersions takes forever to finish
deseq2
6.0 years ago
Nicolas Rosewick
▴ 20
4
votes
5
replies
2.2k
views
All genes display positive fold change in topTable results after limma
limma
microarray
foldchange
DEG
GEO
updated 6.0 years ago by
Gordon Smyth
53k • written 6.0 years ago by
Pietro
▴ 40
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