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SingleCellData
•
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0
votes
2
replies
508
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Integration of Single Cell Experiments with batchelor::fastMNN
fastMNN
SingleCellData
BatchEffect
batchelor
10 weeks ago • updated 9 weeks ago
José
• 0
0
votes
1
reply
447
views
Is CEMiTool for gene coexpression analysis suitable for single cell RNA Seq data?
SingleCellData
CEMiTool
updated 4 months ago by
James W. MacDonald
67k • written 4 months ago by
Menna
• 0
0
votes
1
reply
476
views
Dimensionality reduction visualization
imcRtools
SingleCellData
imcdatasets
SpatialWorkflow
updated 11 months ago by
James W. MacDonald
67k • written 11 months ago by
Simon
• 0
0
votes
7
replies
2.0k
views
Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse
R
SingleCellExperiment
SingleCellData
written 13 months ago by
Sitapriya
• 0
0
votes
2
replies
656
views
Fail to annotate chromosome data to single cell sequencing data obtained from cellranger
AnnotationHubSoftware
SingleCellData
annotationTools
updated 13 months ago by
ATpoint
★ 4.6k • written 13 months ago by
yw24418
• 0
0
votes
3
replies
1.0k
views
insufficient unique points for computing knee/inflection points
DropletUtils
SingleCellData
updated 17 months ago by
ATpoint
★ 4.6k • written 17 months ago by
p.vlachou-efstathiou
• 0
0
votes
2
replies
1.5k
views
Error in SingleR, no common genes between 'test' and 'ref'
singleR
SingleCellExperiment
SingleCellData
18 months ago
Matvii Mykhailichenko
• 0
1
vote
0
replies
901
views
Job:
Research Assistant - Computational Biology/Immunology, Memorial Sloan Kettering, New York
SingleCellData
ComputationalBiology
21 months ago
Chrysothemis
▴ 10
0
votes
0
replies
955
views
Job:
Job as a bioinformatician in Hamburg, Germany
DimensionReduction
SingleCellData
multiomics
MachineLearning
2.1 years ago
Diego's
• 0
0
votes
0
replies
700
views
Gene Id duplicated
SingleCell
SingleCellData
updated 2.2 years ago by
ATpoint
★ 4.6k • written 2.3 years ago by
Romina
• 0
2
votes
2
replies
1.0k
views
How to detect LacZ tagged cells from single cell
SingleCell
SingleCellExperiment
SingleCellWorkflow
SingleCellData
2.3 years ago
k1m
▴ 20
2
votes
4
replies
1.2k
views
Summary of library size factor is all equal to one
SingleCell
SingleCellData
SingleCellWorkflow
SingleCellExperiment
2.3 years ago
Romina
• 0
0
votes
1
reply
1.2k
views
Splatter (unknown correlation between gene expression level in different cell types)
SingleCellData
splatter
updated 2.7 years ago by
luke.zappia
▴ 50 • written 2.7 years ago by
Fatima
• 0
0
votes
1
reply
996
views
Running PLAGE gets killed
GSVA
SingleCellData
updated 2.8 years ago by
Robert Castelo
★ 3.4k • written 2.8 years ago by
Amna
• 0
2
votes
1
reply
2.1k
views
Convert AnnotatedDataFrame S4 object from GEO datasets to Seurat Object
biobase
SingleCellData
seurat
SingleCell
updated 2.9 years ago by
James W. MacDonald
67k • written 2.9 years ago by
NGS_enthusiast
• 0
1
vote
3
replies
2.2k
views
10X FeatureBarcode producing too many "cells"
SingleCellExperiment
DropletUtils
SingleCellData
updated 4.0 years ago by
Aaron Lun
★ 28k • written 4.0 years ago by
msn
▴ 10
16 results • Page
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Answer: DESeq error: counts matrix should be numeric, currently it has mode: character
by
ATpoint
★ 4.6k
R thinks your data are characters (e.g. "1", "2", instead of 1, 2) so given that your `counts_data` indeed only contains counts, do: `mo…
Comment: Any tools to convert .gff to .gtf format
by
ControlF5
• 0
Yes, the Appsierra team recently built a tool to convert .gff to .gtf format. [ControlF5][1] is providing the best software testing service…
Comment: EuroBioC2024 abstract submission is open!
by
Alan Downey
• 0
EuroBioC2024 has opened its abstract submission process, presenting an exciting opportunity for researchers to contribute to groundbreaking…
Comment: ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix
by
O'Brien
• 0
Consult the ChAMP.DMR documentation for more information on supported array types and expected data formats: https://bioconductor.org/packa…
Answer: combining raw counts and estimated counts
by
O'Brien
• 0
It is possible to combine raw counts from TCGA and estimated counts from GEO datasets (Kalisto pseudoalignment) while mitigating batch effe…
Votes
A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor
A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor
A: RNA-seq Normalisation - normalise all samples in experiment or only the ones use
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
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