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•
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0
votes
0
replies
1.5k
views
doRNG installation failure
minfi
doRNG
package installation
error
8.6 years ago
sarka.vorackova
• 0
1
vote
4
replies
7.8k
views
ClusterProfiler - How to : input file, groupGo, enrichGo
clusterprofiler
input files
error
help
updated 8.6 years ago by
Guangchuang Yu
★ 1.2k • written 8.6 years ago by
Mataivic
• 0
1
vote
6
replies
2.9k
views
GoSeq SupportedGenomes error
goseq
unsupported organisms
supportedgenomes
supportedorganisms
error
updated 8.6 years ago by
Gordon Smyth
53k • written 8.6 years ago by
tootiki
• 0
6
votes
6
replies
4.2k
views
Error in .checkKeys(value, Lkeys(x), x@ifnotfound)
Gostats
go term
annotation
drosophila melanogaster
error
updated 8.7 years ago by
tlaguna
▴ 10 • written 9.4 years ago by
nooshin
▴ 300
0
votes
1
reply
1.7k
views
InSilicoMerging error when using merge
insilicomerging
error
insilicodb
expressionset
8.7 years ago
andreas.pittroff
• 0
1
vote
2
replies
1.7k
views
Error in 'rownames' while using TCGAanalyze_Normalization in TCGA_biolinks
tcgabiolinks
error
8.8 years ago
salvl
▴ 10
0
votes
8
replies
2.4k
views
`bplapply` breaks down (BiocParallel_1.6.6, R 3.3.1, openSUSE Leap)
biocparallel
bplapply
Suse
error
process
updated 8.9 years ago by
jan.winter
• 0 • written 8.9 years ago by
schweringmarc01
• 0
1
vote
3
replies
6.2k
views
Error in cleanContrast
deseq2
r
error
updated 8.9 years ago by
Michael Love
43k • written 8.9 years ago by
lauren.fitch
• 0
0
votes
7
replies
3.7k
views
BiocInstaller wants version of R that is not available yet
bioconductor
error
biocinstaller
package installation
install
updated 9.0 years ago by
Martin Morgan
25k • written 9.0 years ago by
matt.s.leslie
• 0
0
votes
1
reply
2.0k
views
Plotting protein-protein interaction enrichment with STRINGdb
stringdb
error
9.0 years ago
Lluís Revilla Sancho
▴ 760
2
votes
3
replies
5.2k
views
Error in DESeqDataSetFromMatrix
deseq2
error
9.1 years ago
lauren.fitch
• 0
0
votes
1
reply
2.7k
views
phyloseq merge_samples attempt to set rownames on an object with no dimensions
phyloseq
merge_samples
rownames
error
9.1 years ago
newmanss
• 0
1
vote
14
replies
1.8k
views
diffHic: Error while counting in predefined regions
error
9.1 years ago
manjulathimma
• 0
0
votes
2
replies
2.8k
views
unused argument (organism="human")
error
updated 9.1 years ago by
li lilingdu
▴ 450 • written 9.1 years ago by
zhaoxiao
• 0
1
vote
1
reply
2.0k
views
Minfi RGChannelSet preprocessing error in assayDataElement
minfi
preprocessing
error
updated 9.1 years ago by
Kasper Daniel Hansen
★ 6.5k • written 9.1 years ago by
lily
• 0
1
vote
1
reply
1.9k
views
CNAnorm Error in addDNACopy -> arguments imply differing number of rows...
cnanorm
addDNACopy
Error
9.1 years ago
karim
• 0
0
votes
1
reply
924
views
listMarts function not responsive
error
problem with biomart's listmarts function
9.2 years ago
piniko
• 0
0
votes
3
replies
1.8k
views
error while making database using Annotationforge package
annotationforge
error
database
updated 9.3 years ago by
Guido Hooiveld
★ 4.1k • written 9.3 years ago by
kritikamish99
▴ 10
0
votes
6
replies
4.8k
views
Error in using Pathview package. Do not print the pathways provided by GAGE analysis
gage
pathview
error
updated 9.3 years ago by
Luo Weijun
★ 1.6k • written 9.4 years ago by
marie.bordone
• 0
0
votes
1
reply
2.1k
views
can't install workflow "rnaseqGene" with Bioconductor version3.3
bioconductor
workflowinstall
error
rnaseqgene
updated 9.3 years ago by
Valerie Obenchain
★ 6.8k • written 9.4 years ago by
cagenet34
▴ 20
1
vote
2
replies
2.0k
views
Error trying to load counts matrix and lane information using "newSeqExpressionSet"
edaseq
error
rna-seq
normalization
updated 9.4 years ago by
davide risso
▴ 980 • written 9.4 years ago by
reba.duncan
• 0
0
votes
5
replies
3.5k
views
Error in (function (classes, fdef, mtable) : unable to find an inherited method for function assayNames for signature "DESeqDataSet"
deseq2
error
updated 9.4 years ago by
Michael Love
43k • written 9.4 years ago by
nooshin
▴ 300
2
votes
2
replies
2.6k
views
Can I calculate counts from the base mean and log2fc outputs of DESeq2? Also, can I calculate error for counts values from lfcse output?
deseq2
chipseq
counts
log2fc
error
updated 9.4 years ago by
Michael Love
43k • written 9.4 years ago by
robin.uchiyama
• 0
0
votes
1
reply
1.6k
views
help installing bioconductor workflows
workflows
biocinstaller
error
9.4 years ago
rocknrollscience
• 0
0
votes
4
replies
1.8k
views
error in import.exon.scheme, XPS package
xps
import.exon.scheme
error
rnadegradationplot
9.7 years ago • updated 9.6 years ago
Biologist
▴ 120
0
votes
6
replies
2.4k
views
BiSeq trimClusters error
biseq
error
trimClusters
updated 9.7 years ago by
Katja Hebestreit
▴ 130 • written 9.8 years ago by
kms68
• 0
0
votes
3
replies
1.8k
views
read.qPCR error : File incorrect, make sure that detectors are the same for all samples
Read.qPCR
error
detectors
9.7 years ago
Elena Serrano
▴ 30
1
vote
0
replies
1.6k
views
biomaRt getBM returns allele as logical instead of character
biomart
getBM
logical
error
9.8 years ago
Christian Ruckert
▴ 170
1
vote
1
reply
2.0k
views
Error of GDS2eSet() function
convert
geoquery
error
GDS2eSet
updated 9.8 years ago by
James W. MacDonald
68k • written 9.8 years ago by
vahideh
• 0
1
vote
6
replies
4.3k
views
failed to load 'AnnotationHub' resource
annotationhub
annotation
error
9.8 years ago
elhananby
▴ 10
2
votes
2
replies
2.2k
views
DMRcate error: object 'annotated' not found
dmrcate
error
updated 9.8 years ago by
Tim Peters
▴ 230 • written 9.8 years ago by
Eric Smith
• 0
10
votes
5
replies
7.2k
views
Error: This function only works when used with the ensembl BioMart.
biomart
error
9.9 years ago
anchel.gonzalez
• 0
1
vote
7
replies
3.0k
views
Error message from updated DESeq2
deseq2
beta prior
error
9.9 years ago
asaferali
• 0
0
votes
1
reply
2.0k
views
CODEX pipeline fails: Error in NSBS(i, x, exact = exact, upperBoundIsStrict = !allow.append) : subscript contains NAs
bioconductor
codex
error
updated 10.0 years ago by
yuchaoj
• 0 • written 10.0 years ago by
nick.jagiella
• 0
3
votes
4
replies
1.6k
views
Errors in makeOrgPackage
annotation
error
updated 10.0 years ago by
James W. MacDonald
68k • written 10.0 years ago by
knishida
▴ 20
3
votes
4
replies
2.2k
views
seq2pathway error on Mac OS X
seq2pathway
error
python
mac os x
10.1 years ago
termanini
▴ 10
0
votes
0
replies
1.5k
views
scan() error when using biomaRt::getBM()
biomart
scan
error
10.1 years ago
enricoferrero
▴ 680
0
votes
1
reply
2.2k
views
RnBeads: Error in as.list.default(data.source) : no method for coercing this S4 class to a vector
rnbeads
error
as.vector(data)
s4vectors
s4
10.1 years ago
schasse
• 0
2
votes
11
replies
7.2k
views
DESeq2 error in evaluating the argument 'args' in selecting a method for function 'do.call'
deseq2
error
updated 10.1 years ago by
Michael Love
43k • written 10.1 years ago by
frankS
▴ 10
0
votes
4
replies
4.1k
views
GEOquery: Error Message
geoquery
error
updated 10.1 years ago by
contato.carlosbau
▴ 10 • written 10.3 years ago by
alakatos
▴ 130
1
vote
1
reply
1.9k
views
Error updating packages: couldn’t understand kern.osversion
package updates
error
updated 10.2 years ago by
Dan Tenenbaum
★ 8.2k • written 10.2 years ago by
sircoulombf
• 0
1
vote
2
replies
5.6k
views
ICU init failed: U_FILE_ACCESS_ERROR while loading library "VariantAnnotation"
variantannotation
library
error
updated 10.2 years ago by
Valerie Obenchain
★ 6.8k • written 10.2 years ago by
kmu004
▴ 50
0
votes
1
reply
1.6k
views
LmFit and eBayes on merged ESET giving errors
limma
eset
error
ebayes
updated 10.3 years ago by
James W. MacDonald
68k • written 10.3 years ago by
Vani
▴ 20
2
votes
4
replies
11k
views
Limma LmFit() giving error: Error in lm.fit(design, t(M)) : incompatible dimension
limma
differential expression
design matrix
error
eset
updated 10.3 years ago by
Aaron Lun
★ 29k • written 10.3 years ago by
Vani
▴ 20
5
votes
5
replies
7.8k
views
DESeq2 "DESeqDataSetFromMatrix" function has started to give me an error
deseq2
error
updated 10.3 years ago by
Martin Morgan
25k • written 10.3 years ago by
alextuck
▴ 30
0
votes
17
replies
3.8k
views
Issue with easyRNASeq
easyRNASeq
error
10.3 years ago
ea11g0
• 0
0
votes
1
reply
4.8k
views
preprocessCore problem: normalize.quantiles error
preprocesscore
error
normalization
updated 10.3 years ago by
Diego Diez
▴ 760 • written 10.3 years ago by
gugpuccio
▴ 10
0
votes
5
replies
2.5k
views
Flowclust install probelms on Ubuntu
flowclust
ubuntu
install
error
10.4 years ago
gareth.howell
• 0
0
votes
3
replies
2.9k
views
Problems to create GmapGenome - gmapR
gmapR
GmapGenome
error
create
10.4 years ago
lelemraposo
▴ 10
1
vote
1
reply
2.0k
views
Error in Package GEOquery
geoquery
error
R
microarray
updated 10.5 years ago by
James W. MacDonald
68k • written 10.5 years ago by
pankajnarula84
▴ 20
159 results • Page
3 of 4
Recent ...
Replies
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
James W. MacDonald
68k
Did you use the development version as Aaron suggested? There is an argument to read the market matrix file directly into an `SVT_SparseMat…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
by
dan.gatti
• 0
Was anyone else able to put the pieces together using the reply above? I read in one 10X sample using DropletUtils::read10xCounts() and thi…
Comment: Announcing GBCC 2025: The first-ever joint conference between Bioconductor and G
by
dzv20413
• 0
Wow, GBCC 2025 sounds amazing, can not wait to see the logo contest results! Also, I just played [Level Devil][1] and it is super addictive…
Comment: Memory error while running alignments
by
Erik Wright
▴ 150
How much memory is available on the computer? A distance matrix of 50k sequences requires at least 50k*50k/2 * 8 bytes = 10GB, assuming the…
Comment: NA values for DESeq2 p-values and adjusted p-values using large sample sizes
by
Gabriel
• 0
Thank you very much for the reply. However, none of these three options seems to fit: 1) The genes for which NA appears do not have all 0 …
Votes
Comment: Check removeBatchEffect effectiveness
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
Answer: DESeq2 design for haplotype MPRA
A: Different logFC (log2foldchange) values for genes from limma-voom and other too
Comment: Check removeBatchEffect effectiveness
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