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What is Power BI, and how do Power BI Experts enhance its functionality?
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Welcome Bonus of USD 999 for free, join today!
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• 0 • written 17.1 years ago by
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▴ 10
0
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1
reply
273
views
SingleR with multiple single cell references
SingleR
scran
updated 1 day ago by
Aaron Lun
★ 28k • written 2 days ago by
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▴ 180
0
votes
1
reply
340
views
Automatically install dependencies
Install
dependencies
biocmanager
updated 2 days ago by
ATpoint
★ 4.7k • written 2 days ago by
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0
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0
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33
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Help with mouse cell type annotation
annotation
SingleR
mouse
SingleCellData
scRNAseq
2 days ago
Muhammad
• 0
0
votes
1
reply
456
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To count or not to count multi-overlapping reads?
RNA-Seq
featureCounts
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updated 2 days ago by
Gordon Smyth
52k • written 3 days ago by
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0
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0
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23
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UniProt.ws query for single UniRef90 ID takes several minutes
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3 days ago
Nina
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0
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0
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19
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Unable to restore chromosome sequence lengths or other metadata in BSgenome.Mfascicularis.NCBI.6.0
BSgenome.Mfascicularis.NCBI.6.0
3 days ago
Genevieve
• 0
1
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2
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914
views
Weird p-values using DESeq2?
DESeq2
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updated 3 days ago by
ATpoint
★ 4.7k • written 3 days ago by
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0
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0
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40
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Job:
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3 days ago
Wolfgang Huber
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26
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Generating Biphasic Curves in Offline GR Metrics Package
GRmetrics
4 days ago
Jasmitha
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3
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5
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927
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Overcoming confounding in batch effect correction
sva
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4 days ago • updated 3 days ago
bbao
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3
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2
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890
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Store Matrix in DataFrame Cell
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6 days ago • updated 3 days ago
Dario Strbenac
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0
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7
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2.1k
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DiffBind - question on the use of filtered or unfiltered input data
DiffBind
written 22 months ago by
Oscar
• 0
0
votes
2
replies
290
views
For some reason I can't update BiocManager to 3.20
Bioconductor
updated 4 days ago by
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0
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1
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102
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KEGG GSEA using Clusterprofiler - ncbi-geneid missing?
clusterProfiler
KEGG
6 days ago • updated 5 days ago
Jessica
• 0
0
votes
0
replies
29
views
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6 days ago
Maria Doyle
▴ 100
0
votes
1
reply
116
views
Comparing Mock vs Infected in WT and Knockout Cells
DESeq2
DifferentialExpression
DifferentialRegulation
RNASeq
GeneSetEnrichment
updated 6 days ago by
Michael Love
43k • written 10 days ago by
Sahil
• 0
0
votes
1
reply
272
views
In WGCNA, what networkType should be used in pickSoftThreshold for a Signed Nowick TomType
WGCNA
pickSoftThreshold
SignedNowick
updated 6 days ago by
ATpoint
★ 4.7k • written 14 days ago by
ddrummer0056
• 0
0
votes
1
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121
views
Error: lexical error: invalid char in json text (alevin-seurat)
tximpo
tximportData
alevinQC
updated 6 days ago by
ATpoint
★ 4.7k • written 10 days ago by
ptlsugam
• 0
0
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0
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44
views
Help with MetagenomeSeq, understanding the 75th quantile
metagenomeSeq
cumulativesumscaling
updated 6 days ago by
James W. MacDonald
68k • written 9 days ago by
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• 0
0
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0
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107
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Methylation data - different probes are classified differently based on transcript? (Illumina methylation arrays, using minfi)
minf
minfiDataEPIC
MethylationArrayData
MethylationArray
EPICv2manifest
10 days ago
charlie.wright
• 0
0
votes
3
replies
423
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DESeq2 adujsted p-value cutoff seemingly not working
DESeq2
updated 6 days ago by
980linnet
• 0 • written 12 days ago by
Guilherme
• 0
0
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4
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378
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updated 5 days ago by
Sean Davis
21k • written 12 days ago by
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1
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2
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723
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Issue with assigning transcript IDs to reads when using summarizeOverlaps(mode = IntersectionNotEmpty)
GenomicAlignments
summarizeOverlaps(
Smart-seq2
proteinvariantcounting
12 days ago • updated 11 days ago
SofieK
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0
votes
2
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252
views
Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes))
methylationArrayAnalysis
Normalization
Epigenetics
MethylationArrayData
13 days ago • updated 12 days ago
a.alkema
• 0
0
votes
2
replies
327
views
accounting for vs. removing batch effects with DESeq2 in RNAseq analysis
DESeq2
updated 9 days ago by
Blair
• 0 • written 14 days ago by
A
• 0
0
votes
2
replies
296
views
displaying the differential expression with deseq2 over 4X2 samples with the individual changes in gene expression per sample
DESeq2
14 days ago
Martijn
• 0
0
votes
3
replies
336
views
How to compare expression levels of genes between scRNAseq and bulkRNAseq?
Seurat
RNASeq
DESeq2
scRNAseq
updated 14 days ago by
jodan
• 0 • written 23 days ago by
Quang NN
▴ 10
5
votes
4
replies
771
views
Unused arguments error without used arguments in GSVA?
GSVA
updated 13 days ago by
Axel Klenk
★ 1.1k • written 17 days ago by
1sunmic2
• 0
0
votes
1
reply
988
views
Using genomicRanges / plyranges to calculate score of peaks within intervals
plyranges
GenomicRanges
updated 15 days ago by
Michael Love
43k • written 3.8 years ago by
alorsonmethyle
• 0
1
vote
1
reply
1.6k
views
Reducing and aggregating GRanges with gaps using plyranges
GenomicRanges
plyranges
updated 15 days ago by
Michael Love
43k • written 4.4 years ago by
r.a.policastro
• 0
3
votes
3
replies
308
views
plyranges: find exact GRanges match keeping metadata columns
plyranges
updated 6 days ago by
Michael Love
43k • written 16 days ago by
alexis.weinreb
• 0
0
votes
0
replies
53
views
News:
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cadd.v1.6.hg38
17 days ago
info
▴ 10
0
votes
1
reply
135
views
Restricting differential binding analysis to only TSS-proximal regions
ChIP
csaw
updated 17 days ago by
Aaron Lun
★ 28k • written 18 days ago by
Luca
• 0
0
votes
0
replies
75
views
Batch Correction while implementing QSEA package
qsea
MEDIPS
MEDIPSData
DNAMethylation
18 days ago
User3088
• 0
0
votes
0
replies
51
views
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Community
Conference
GBCC2025
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18 days ago
Maria Doyle
▴ 100
0
votes
1
reply
106
views
building samplesheet and plot profile
DiffBind
18 days ago • updated 16 days ago
yf
• 0
0
votes
0
replies
43
views
DBT JRF & PhD Scholar
BiologicalQuestion
OmicsMLRepoR
19 days ago
Manisha
• 0
0
votes
1
reply
160
views
I am having issues with bowtie2_build
genomes
bowtiew
Index
updated 19 days ago by
James W. MacDonald
68k • written 20 days ago by
eduardo.pastor
• 0
0
votes
1
reply
138
views
DEG analysis across multiple timepoints, treatments and tissues
DifferentialExpression
RNASeq
DESeq2
updated 19 days ago by
Michael Love
43k • written 20 days ago by
Sim
• 0
0
votes
0
replies
71
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
20 days ago
cftattersfield
• 0
1
vote
0
replies
136
views
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20 days ago
Maria Doyle
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votes
2
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488
views
How to visualize these pathways using pathview
Salmo_salar
RNASeq
KEGG
pathview
20 days ago • updated 3 days ago
ingrid.h
• 0
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Answer: SingleR with multiple single cell references
by
Aaron Lun
★ 28k
> Is it necessary to piece together the individual steps manually (e.g. aggregateReference, trainSingleR, classifySingleR, combineRecompute…
Answer: Automatically install dependencies
by
ATpoint
★ 4.7k
The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…
Answer: To count or not to count multi-overlapping reads?
by
Gordon Smyth
52k
> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…
Comment: Weird p-values using DESeq2?
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ATpoint
★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
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A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo
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