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Showing :
questions
2
votes
2
replies
403
views
Is MACS3 the same as MACS2?
MACS
MACS3
MACS2
updated 10 weeks ago by
GenoMax
140k • written 10 weeks ago by
cwwong13
▴ 40
6
votes
5
replies
684
views
Tests for the linear and non-linear relationship between two genes
ode
drc
correlation
regression
rnaseq
updated 12 weeks ago by
ATpoint
81k • written 3 months ago by
cwwong13
▴ 40
0
votes
1
reply
341
views
Testing the interaction term in single-cell RNAseq DEG analysis
DEG
scRNAseq
Seurat
updated 4 months ago by
ATpoint
81k • written 4 months ago by
cwwong13
▴ 40
0
votes
7
replies
1.1k
views
Highly inflated p-values in GWAS by regenie
regenie
plink
gwas
6 months ago by
cwwong13
▴ 40
2
votes
7
replies
792
views
Should we assume UMI-based scRNAseq data is not compositional?
compositional
scRNAseq
8 months ago by
cwwong13
▴ 40
0
votes
1
reply
485
views
Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
WGCNA
r
RNA-seq
cluster
updated 8 months ago by
Ram
43k • written 8 months ago by
cwwong13
▴ 40
0
votes
3
replies
727
views
Summarizing permutation test/ bootstrap result for multiple samples for single-cell RNAseq data
single-cell
RNA-seq
12 months ago by
cwwong13
▴ 40
0
votes
1
reply
477
views
overlay ggplot graphs like those merging channels in imagej
ggplot
imagej
updated 13 months ago by
LChart
3.9k • written 13 months ago by
cwwong13
▴ 40
1
vote
0
replies
430
views
What are the differences between GSVA and ssGSEA (in layman's term)?
ssGSEA
GSVA
GSEA
13 months ago by
cwwong13
▴ 40
3
votes
4
replies
717
views
Do I need to adjust the pvalue if I am only going to test one gene from omics data containing many genes?
pvalue
Omics
RNAseq
13 months ago by
cwwong13
▴ 40
2
votes
2
replies
637
views
List of genes that are uniquely found in human (not in mouse)
orthologue
genome
gene
updated 16 months ago by
Ram
43k • written 16 months ago by
cwwong13
▴ 40
0
votes
1
reply
781
views
Is it possible to infer whether a patient is with homozygous with the alternative alleles (at two different location)
association
WES
variant
genome
updated 22 months ago by
d-cameron
★ 2.9k • written 2.7 years ago by
cwwong13
▴ 40
2
votes
3
replies
1.0k
views
Determine sex/ gender of a mouse cell line via sequencing data
sequencing
line
cell
updated 21 months ago by
Amos Bairoch
▴ 120 • written 22 months ago by
cwwong13
▴ 40
1
vote
10
replies
2.0k
views
The modules are not clustered together after WGCNA
cluster
WGCNA
r
dendrograms
23 months ago by
cwwong13
▴ 40
2
votes
1
reply
692
views
Ways or packages to analyze single-cell RNAseq data that prepared following Tang's protocol
cell
RNAseq
seurat
single
updated 23 months ago by
ATpoint
81k • written 23 months ago by
cwwong13
▴ 40
1
vote
3
replies
775
views
What is the current recommended way to process/ analyze Ion Torrent Proton RNAseq data
RNAseq
Proton
Ion
analysis
Torrent
pipeline
processing
updated 2.1 years ago by
Istvan Albert
100k • written 2.1 years ago by
cwwong13
▴ 40
0
votes
3
replies
879
views
COVID-19 WGS sequencing for individuals having mRNA vaccination
mRNA
COVID
vaccine
WGS
updated 2.3 years ago by
5heikki
11k • written 2.3 years ago by
cwwong13
▴ 40
0
votes
0
replies
489
views
Molecular docking considerations
binding
affinity
vina
biology
docking
structural
ligand
2.4 years ago by
cwwong13
▴ 40
4
votes
4
replies
1.9k
views
Proper way(s) to perform enrichment analysis in R
GSEA
analysis
enrichment
R
RNAseq
updated 2.5 years ago by
bigomics.team
▴ 90 • written 2.5 years ago by
cwwong13
▴ 40
2
votes
4
replies
3.8k
views
normalization to "housekeeping" genes of RNAseq data vs qPCR result
qPCR
RNAseq
updated 2.6 years ago by
ATpoint
81k • written 2.6 years ago by
cwwong13
▴ 40
0
votes
3
replies
933
views
Assessing how similar/ different of activated pathways between multiple groups of samples
pathway
correlation
test
hypothesis
updated 2.6 years ago by
LauferVA
4.1k • written 2.6 years ago by
cwwong13
▴ 40
0
votes
0
replies
394
views
assessing relative contribution of samples/ organs towards a diseases in multi-tissue RNAseq
RNAseq
2.6 years ago by
cwwong13
▴ 40
0
votes
1
reply
630
views
Association analysis with SNP
association
WGS
GWAS
SNP
WES
updated 2.7 years ago by
Collin
▴ 1000 • written 2.7 years ago by
cwwong13
▴ 40
0
votes
2
replies
661
views
program/ software to generate large synthetic benchmark gene/ protein interaction network
PPI
interaction
benchmark
network
R
2.7 years ago by
cwwong13
▴ 40
2
votes
6
replies
1.4k
views
sequencing adapter/ index when mixing two library preparation kit
adapter
RNA-Seq
illumina
index
updated 2.7 years ago by
swbarnes2
14k • written 2.8 years ago by
cwwong13
▴ 40
0
votes
4
replies
842
views
different padj from DESeq2 when using different contrast input format
DESeq2
RNA-Seq
2.8 years ago by
cwwong13
▴ 40
0
votes
0
replies
597
views
Focused pathway analysis
fgsea
clusterProfiler
GSEA
KEGG
pathway
2.8 years ago by
cwwong13
▴ 40
0
votes
1
reply
1.9k
views
how to run and use the ENCODE ATAC-seq pipline
ATAC-seq
ENCODE
peak
updated 2.9 years ago by
Jeremy Leipzig
22k • written 3.1 years ago by
cwwong13
▴ 40
0
votes
0
replies
1.8k
views
Troubleshooting abnormal ATAC-seq diagnostic plots
QC
Sequencing
ATAC-seq
Troubleshooting
2.8 years ago by
cwwong13
▴ 40
3
votes
3
replies
1.4k
views
Can I pool RNA-seq library with ATAC-seq library and sequence in the same S4 lane?
RNA-seq
Sequencing
ATAC-seq
updated 3.0 years ago by
GenoMax
140k • written 3.0 years ago by
cwwong13
▴ 40
0
votes
2
replies
1.9k
views
Is it worth to analyzing low quality ATAC-seq data
ATAC-seq
QC
TSS
3.0 years ago by
cwwong13
▴ 40
11
votes
5
replies
1.3k
views
Does DESeq2 and EdgeR account for the increased total RNA production in one of the experimental group
RNA-Seq
DESeq2
EdgeR
updated 3.0 years ago by
i.sudbery
18k • written 3.0 years ago by
cwwong13
▴ 40
0
votes
1
reply
984
views
Confusion of the input format for DESeq2 and EdgeR for bulk- and scRNA-seq
DESeq2
EdgeR
RNA-Seq
scRNA-seq
3.1 years ago by
cwwong13
▴ 40
0
votes
0
replies
723
views
Getting normalized count/ gene expression matrix for both bulk and single-cell RNA-seq
RNA-Seq
scRNA-seq
DESeq2
EdgeR
3.1 years ago by
cwwong13
▴ 40
2
votes
3
replies
3.1k
views
R object can allow duplicated column name and storing different types of values
R
python
updated 3.1 years ago by
Ram
43k • written 3.1 years ago by
cwwong13
▴ 40
1
vote
2
replies
1.5k
views
ATAC-seq bowtie2 alignment and pre-alignment adapter clipping
ATAC-seq
alignment
bowtie2
updated 3.1 years ago by
ATpoint
81k • written 3.1 years ago by
cwwong13
▴ 40
0
votes
0
replies
747
views
Deseq2 getting ANOVA-like result from 3 by 3 factor design
R
RNA-Seq
Deseq2
anova
updated 3.9 years ago by
GenoMax
140k • written 3.9 years ago by
cwwong13
▴ 40
0
votes
1
reply
1.8k
views
Calculating coverage of genes which have accounted for multiple best hits from bam/sam files
alignment
next-gen
bwa
samtools
bedtools
updated 6.6 years ago by
Michael
54k • written 6.6 years ago by
cwwong13
▴ 40
38 results • Page
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