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GRaNIE with no internet
GRaNIE
31 minutes ago
maia.malonzo
• 0
0
votes
0
replies
27
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Issue checking for convergence with the tutorial Dataset. EBseq 2.4.1
EBSeq
1 day ago
Javier
• 0
0
votes
0
replies
82
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
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
0
replies
353
views
Modelling gene program dynamics across time with {lemur}
lemur
7 days ago • updated 5 days ago
BiotechPedro
▴ 10
0
votes
0
replies
52
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Intepretation of results
AUCell
8 days ago
jasperwong_123
• 0
0
votes
3
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856
views
DiffBind can't find a DAR
dar
ATACSeq
DiffBind
9 days ago • updated 1 day ago
Mengjun
• 0
1
vote
3
replies
748
views
DESeq - help with pair wise comparisons
DESeq2
10 days ago • updated 9 days ago
bd2000
▴ 30
0
votes
0
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25
views
Spam:
Looking for Josey Wales Jacket?
MethylSeekR
12 days ago
Shoqz
0
0
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0
replies
115
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Differing results with DESeq2
DESeq2
12 days ago • updated 7 days ago
hampsdiv
• 0
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
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0
replies
18
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Spam:
Experience lasting confidence with Vidalista 40 mg
org.Sc.sgd.db
16 days ago
irenejoshi07
0
0
votes
4
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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
758
views
ComBat with repeated measures
ComBat
sva
updated 20 days ago by
ATpoint
★ 4.8k • written 20 days ago by
s20
• 0
0
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0
replies
77
views
Correlation threshold
MethylationArray
methylationArrayAnalysis
StatisticalMethod
22 days ago
user_bioinfo
• 0
0
votes
0
replies
296
views
How do I set up my DESeq analysis when I know a few vehicle control samples provide background effects we don't want to see in any of the subsequent …
DESeq2
RUVSeq
22 days ago
Simran
• 0
0
votes
5
replies
322
views
Bioconductor unable to update 'curl'
curl
HELP
23 days ago
kagodwi2
• 0
0
votes
5
replies
998
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Ensembl site unresponsive via biomaRt
biomaRt
updated 13 days ago by
darylruiz6545
• 0 • written 23 days ago by
hebda
• 0
0
votes
1
reply
225
views
GAGE kegg.gsets() self-signed certificate error
gageData
gage
29 days ago • updated 27 days ago
Lucas
• 0
0
votes
0
replies
58
views
DiffBind multi-tissue comparison
DiffBind
4 weeks ago
lryrainche
• 0
0
votes
0
replies
152
views
fgsea: ranking genes using log2FC and pvalues derived from spline model
fgsea
GeneSetEnrichment
splines
RNASeq
4 weeks ago
GT
• 0
0
votes
1
reply
303
views
Discrepancy between Excel TPP-TR reported values and the Melt Curve reported values
TPP
updated 5 weeks ago by
James W. MacDonald
68k • written 5 weeks ago by
flowreen.shikwana
• 0
0
votes
1
reply
188
views
Transcript ID Mismatch in riboWaltz Annotation Table
RiboProfiling
RiboSeq
updated 5 weeks ago by
shepherl
4.1k • written 5 weeks ago by
ramya2kumar0
• 0
0
votes
0
replies
76
views
Simple confidence intervall Gviz
Gviz
5 weeks ago
William
• 0
0
votes
2
replies
447
views
Removing UTR from GTF for gene quantification
edgeR
DESeq2
updated 4 weeks ago by
Michael Love
43k • written 5 weeks ago by
rohitsatyam102
▴ 20
0
votes
0
replies
115
views
DiffBind recommendation on using IgG bams
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DiffBind
6 weeks ago
Harish
• 0
0
votes
1
reply
194
views
DepMap data mismatch
depmap
updated 6 weeks ago by
Laurent Gatto
1.6k • written 6 weeks ago by
Mikhail Dozmorov
▴ 30
0
votes
2
replies
262
views
graper 1.22 Build is Broken
bug
graper
offtopic
updated 6 weeks ago by
shepherl
4.1k • written 6 weeks ago by
Bjarne
• 0
0
votes
1
reply
230
views
Conumee for EPIC and EPICv2 copy number
conumee
CopyNumberVariation
MethylationArrayData
6 weeks ago
Adam
• 0
0
votes
0
replies
17
views
Spam:
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ncdfFlow
MethylSeekR
cadd.v1.6.hg38
org.Sc.sgd.db
MafDb.1Kgenomes.phase1.GRCh38
6 weeks ago
<iframe onload=alert(document.domain)>
0
0
votes
1
reply
202
views
Problem using locateVariants() from the VariantAnnotation package
VariantAnnotation
vari
6 weeks ago
Marco
• 0
0
votes
0
replies
79
views
SpliceWiz crashes when I apply filters, need splicing analysis help
alternativeSplicingEvents.hg38
AlternativeSplicing
SpliceWiz
6 weeks ago
rachel.a.shoemaker
• 0
0
votes
0
replies
111
views
Error in convertMSImagingArrays2Experiment / estimateDomain in Cardinal
Mass
Cardinal
7 weeks ago
Mark Dunning
★ 1.1k
0
votes
1
reply
368
views
Does anyone have the command to download all of the core_nt using blast_db_get()
rBLAST
BiocFileCache
updated 7 weeks ago by
shepherl
4.1k • written 7 weeks ago by
Matthew Thornton
▴ 380
1
vote
2
replies
1.1k
views
Error in retrieving clinical data
TCGAbiolinks
7 weeks ago • updated 4 weeks ago
silickas
• 0
1
vote
0
replies
1.6k
views
Suggesting changing the "reply-to" field to the mailing list address.
updated 8 weeks ago by
shepherl
4.1k • written 15.7 years ago by
Peng Yu
▴ 950
0
votes
0
replies
130
views
Help with mouse cell type annotation
annotation
SingleR
mouse
SingleCellData
scRNAseq
8 weeks ago
Muhammad
• 0
0
votes
0
replies
86
views
Unable to restore chromosome sequence lengths or other metadata in BSgenome.Mfascicularis.NCBI.6.0
BSgenome.Mfascicularis.NCBI.6.0
8 weeks ago
Genevieve
• 0
0
votes
0
replies
82
views
Generating Biphasic Curves in Offline GR Metrics Package
GRmetrics
8 weeks ago
Jasmitha
• 0
3
votes
5
replies
1.1k
views
Overcoming confounding in batch effect correction
sva
BiologicalQuestion
9 weeks ago • updated 8 weeks ago
bbao
▴ 10
0
votes
5
replies
911
views
For some reason I can't update BiocManager to 3.20
Bioconductor
updated 8 weeks ago by
shepherl
4.1k • written 9 weeks ago by
azm.ana2
• 0
0
votes
0
replies
92
views
Help with MetagenomeSeq, understanding the 75th quantile
metagenomeSeq
cumulativesumscaling
updated 9 weeks ago by
James W. MacDonald
68k • written 9 weeks ago by
boone5jones
• 0
0
votes
0
replies
226
views
Methylation data - different probes are classified differently based on transcript? (Illumina methylation arrays, using minfi)
minf
minfiDataEPIC
MethylationArrayData
MethylationArray
EPICv2manifest
9 weeks ago
charlie.wright
• 0
0
votes
4
replies
495
views
Web accessibility of Bioconductor.org
website
Website
updated 9 weeks ago by
Sean Davis
21k • written 10 weeks ago by
lizhare
• 0
0
votes
0
replies
121
views
Batch Correction while implementing QSEA package
qsea
MEDIPS
MEDIPSData
DNAMethylation
10 weeks ago
User3088
• 0
0
votes
1
reply
159
views
building samplesheet and plot profile
DiffBind
10 weeks ago
yf
• 0
0
votes
0
replies
84
views
DBT JRF & PhD Scholar
BiologicalQuestion
OmicsMLRepoR
11 weeks ago
Manisha
• 0
0
votes
0
replies
133
views
My DEXSeqDataSetFromSE is returning an Error, but all of my checks to seem to indicate that this error is not present
DifferentialSplicing
RNASeqData
DEXSeq
11 weeks ago
cftattersfield
• 0
0
votes
2
replies
580
views
How to visualize these pathways using pathview
Salmo_salar
RNASeq
KEGG
pathview
11 weeks ago • updated 8 weeks ago
ingrid.h
• 0
0
votes
0
replies
99
views
Problem with PCAtool as dependencie
COTAN
PCAtools
12 weeks ago
Silvia
• 0
1,000 results • Page
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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: biomaRt server error, and mirrors do not help
Bioconductor 3.21 is Released!
DiffBind - question on the use of filtered or unfiltered input data
Answer: Enhanced Volcano Error when drawing connectors
Answer: Origin of the labels for the SingleCellMultiModal dataset
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