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GRaNIE with no internet
GRaNIE
3 hours ago
maia.malonzo
• 0
0
votes
5
replies
2.2k
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Aclust package: IlluminaHumanMethylation450kCHR37 not found
illuminahumanmethylation450k.db
aclust
methylation
annotation
illumina
written 8.7 years ago by
aagata.szymanek
• 0
1
vote
0
replies
142
views
News:
Bioconductor 3.21 is Released!
devel
release
Release
Devel
19 hours ago
shepherl
4.1k
0
votes
1
reply
196
views
Version conflict when pushing to scQTLtools devel branch
Bioconductor
updated 19 hours ago by
shepherl
4.1k • written 21 hours ago by
XFWu
• 0
0
votes
0
replies
27
views
Issue checking for convergence with the tutorial Dataset. EBseq 2.4.1
EBSeq
1 day ago
Javier
• 0
1
vote
9
replies
2.9k
views
DiffBind - question on the use of filtered or unfiltered input data
DiffBind
updated 2 days ago by
blackleatherjackets.blj
• 0 • written 24 months ago by
Oscar
▴ 10
0
votes
3
replies
647
views
Log2foldchange strange behavior
DESeq2
updated 3 days ago by
ATpoint
★ 4.8k • written 3 days ago by
RambakKulit
• 0
0
votes
1
reply
498
views
WGCNA
WGCNA
DESeq2
updated 5 days ago by
ATpoint
★ 4.8k • written 9 days ago by
bioinformaticssrm2011
• 0
0
votes
2
replies
548
views
cannot download atena annotation for human
atena
updated 5 days ago by
Robert Castelo
★ 3.4k • written 6 weeks ago by
Davide
• 0
0
votes
1
reply
740
views
Comparison of results obtained from a subset of the data versus the complete dataset for a few selected genes.
DESeq2
updated 5 days ago by
swbarnes2
★ 1.4k • written 6 days ago by
Bioinformatician_R
▴ 20
0
votes
0
replies
84
views
I want my overlapping peaks to stop merging by default doing read counting (using DiffBind in R-studio)
peakoverlap
mergingpeaks
ChIPseq
DiffBind
6 days ago
atlanta
• 0
1
vote
1
reply
1.1k
views
PhD scholar
RNASeqAnalysis
DESeq2
updated 6 days ago by
shepherl
4.1k • written 6 days ago by
Richa
• 0
2
votes
3
replies
1.3k
views
how to use `arrayWeightsQuick()`?
limma
updated 6 days ago by
Gordon Smyth
52k • written 7 days ago by
matthew
• 0
0
votes
1
reply
693
views
Differential expression analysis using two TCGA datasets
DifferentialExpression
TCGAbiolinks
RNASeq
updated 6 days ago by
ATpoint
★ 4.8k • written 6 days ago by
Shaimaa Gamal
• 0
1
vote
4
replies
766
views
fast apply on RleList
GenomicRanges
RleList
7 days ago • updated 6 days ago
story.benjamin
▴ 20
0
votes
1
reply
201
views
Custom CDF creation for HTA 2.0 array using GTF annotation
oligo
oligoClasses
pdInfoBuilder
affycoretools
affyio
7 days ago • updated 6 days ago
Seymoo
• 0
0
votes
8
replies
1.4k
views
Deleted:No significant MVPs with a BH adjusted P-value below 0.05
ChAMP
written 16 months ago by
486342583
• 0
3
votes
5
replies
737
views
BiocParallel_1.40.1.tar.gz not available
BiocParallel
8 days ago • updated 7 days ago
Johan
• 0
1
vote
0
replies
353
views
Modelling gene program dynamics across time with {lemur}
lemur
8 days ago • updated 6 days ago
BiotechPedro
▴ 10
1
vote
7
replies
2.3k
views
DNAStringSet(x, start=, end=) loses quality information
Biostrings
updated 7 days ago by
stenlana035
• 0 • written 3.4 years ago by
Gerhard Thallinger
▴ 180
0
votes
0
replies
52
views
Intepretation of results
AUCell
8 days ago
jasperwong_123
• 0
0
votes
2
replies
424
views
Model performance for spline modelling of RNA-seq timecourses in edgeR
edgeR
limma
updated 4 days ago by
Gordon Smyth
52k • written 9 days ago by
skiaphrene
▴ 10
0
votes
1
reply
251
views
DESeq2 - am I extracting results incorrectly?
DESeq2
updated 8 days ago by
James W. MacDonald
68k • written 9 days ago by
bd2000
▴ 30
2
votes
1
reply
843
views
Having Trouble Using CNE12() and CNE21() in CNEr
GenomicRanges
CNEr
9 days ago
1324087964
• 0
1
vote
1
reply
1.4k
views
Origin of the labels for the SingleCellMultiModal dataset
labels
PBMC
SingleCellMultiModal
10X
updated 9 days ago by
ATpoint
★ 4.8k • written 9 days ago by
javier.ruizramirez
• 0
0
votes
3
replies
911
views
DiffBind can't find a DAR
dar
ATACSeq
DiffBind
10 days ago • updated 1 day ago
Mengjun
• 0
1
vote
3
replies
749
views
DESeq - help with pair wise comparisons
DESeq2
10 days ago
bd2000
▴ 30
0
votes
0
replies
25
views
Spam:
Looking for Josey Wales Jacket?
MethylSeekR
12 days ago
Shoqz
0
0
votes
0
replies
115
views
Differing results with DESeq2
DESeq2
12 days ago • updated 8 days ago
hampsdiv
• 0
1
vote
8
replies
2.5k
views
DESeq: Gene is not flagged as differentially expressed despite count data showing differences
DifferentialExpression
DESeq2
13 days ago • updated 10 days ago
ktz
• 0
0
votes
3
replies
853
views
compute_fasta_digest does not match Salmon index hash
tximeta
updated 3 days ago by
Michael Love
43k • written 22 days ago by
Alex
• 0
0
votes
0
replies
68
views
News:
Introduction to Epigenomics data analysis with R and Bioconductor course (online) - 14th-18th April
chipseq
MNaseSeq
ATACSeq
14 days ago • updated 10 days ago
info
▴ 10
1
vote
2
replies
847
views
Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
annotation
geneIDs
flatheadmullet
updated 14 days ago by
James W. MacDonald
68k • written 14 days ago by
andremicc
• 0
0
votes
1
reply
435
views
News:
List of Deprecated Packages for Bioc3.20
Release
Devel
Bioconductor
5 months ago • updated 14 days ago
shepherl
4.1k
0
votes
1
reply
136
views
Issue with Soft-Thresholding in WGCNA
WGCNA
updated 14 days ago by
dirty.cougar.risi
• 0 • written 15 days ago by
Μαρία
• 0
0
votes
0
replies
18
views
Spam:
Experience lasting confidence with Vidalista 40 mg
org.Sc.sgd.db
16 days ago
irenejoshi07
0
1
vote
2
replies
1.1k
views
Help with the code for "BiocNeighbors::generic_find_knn() function used by scran::quickCluster()
BiocNeighbors
generic_find_knn
scran
quickCluster
18 days ago • updated 17 days ago
Arctic
• 0
0
votes
1
reply
542
views
DESeq2
org.Mmu.eg.db
DESeq2
TimeCourse
DMSOvsdrug
RNASeqData
updated 18 days ago by
ATpoint
★ 4.8k • written 19 days ago by
Cosmic
• 0
0
votes
1
reply
530
views
Mismatch between Illumina Mouse Methylation BeadChip annotation and genome browsers (UCSC/Ensembl)
methylationArrayAnalysis
MethylationArrayData
updated 20 days ago by
James W. MacDonald
68k • written 20 days ago by
luisa.turco
• 0
1
vote
4
replies
1.4k
views
Package developing and interoperation with Bioconductor
Package
Bioconductor
20 days ago • updated 19 days ago
slizchap
• 0
4
votes
6
replies
1.2k
views
Surprising behavior for DEXseq dispersion estimate plot?
DESeq2
DEXSeq
updated 20 days ago by
ATpoint
★ 4.8k • written 6 weeks ago by
Elijah
• 0
0
votes
4
replies
1.1k
views
Error in H5Dclose(h5dataset) when trying to read in kallisto h5 files
tximport
rhdf5
20 days ago • updated 16 days ago
Sofia
• 0
1
vote
1
reply
759
views
ComBat with repeated measures
ComBat
sva
updated 20 days ago by
ATpoint
★ 4.8k • written 20 days ago by
s20
• 0
0
votes
0
replies
81
views
News:
List of Deprecated Packages for Bioc3.21
devel
Release
release
Devel
20 days ago
shepherl
4.1k
0
votes
0
replies
86
views
News:
Bioconductor 3.21 Release Schedule Important Deadlines Approaching
Software
Release
release
21 days ago
shepherl
4.1k
0
votes
0
replies
77
views
Correlation threshold
MethylationArray
methylationArrayAnalysis
StatisticalMethod
22 days ago
user_bioinfo
• 0
0
votes
0
replies
4
views
Spam:
Does Spirit give free refunds?
ncdfFlow
hcg110.db
MethylSeekR
22 days ago
Haggu
10
0
votes
0
replies
28
views
Spam:
Can I change my BA flight to another date?
org.Sc.sgd.db
MafDb.1Kgenomes.phase1.GRCh38
ncdfFlow
22 days ago
Haggu
10
1
vote
0
replies
22
views
Spam:
What is the cheapest day to fly on American Airlines? {Ask_Expert}
cadd.v1.6.hg38
MafDb.1Kgenomes.phase1.GRCh38
ncdfFlow
22 days ago
Haggu
10
0
votes
0
replies
41
views
Spam:
Can I cancel my British Airways flight and get a refund?
CAGEr
gep2pep
hcg110.db
22 days ago
Haggu
10
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Answer: Version conflict when pushing to scQTLtools devel branch
by
shepherl
4.1k
There is a Bioconductor release today. There were notifications on the bioc-devel mailing list https://stat.ethz.ch/pipermail/bioc-devel…
Comment: DiffBind can't find a DAR
by
Mengjun
• 0
The details about this question: I have 4 samples with 2 conditions( ctrl_1, ctrl_2, ko_1, ko_2), i use these 4 samples as input. Here is …
Comment: DiffBind can't find a DAR
by
Mengjun
• 0
Thank you very much for pointing out this shortcoming. I will improve it.
Comment: samtools loading in R
by
Charlie
• 0
This is obviously a very late answer but I had a similar error: > sh: samtools: command not found > > sh: samtools: command not found > …
Comment: Easiest way to convert read10xMolInfo data into a dataframe in R with gene label
by
njmcdirect
• 0
https://www.www-njmcdirect.run/
Votes
Comment: GSVA ssGSEA vs. Broad implementation of ssGSEA
Comment: GSVA ssGSEA vs. Broad implementation of ssGSEA
Answer: GSVA ssGSEA vs. Broad implementation of ssGSEA
GSVA ssGSEA vs. Broad implementation of ssGSEA
Comment: biomaRt server error, and mirrors do not help
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