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Limit : this week
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148 results • Page
2 of 3
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Votes
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0
votes
0
replies
1.3k
views
which value from ruvadj in missMethyl can present methylation status
R
RUV
methylation
missmethyl
batch-effect
updated 1 day ago by
Ram
43k • written 5.9 years ago by
RC
▴ 20
0
votes
0
replies
1.5k
views
minifi for RRBS
rrbs
batch-effect
methylation
updated 1 day ago by
Ram
43k • written 7.1 years ago by
German.M.Demidov
★ 2.9k
0
votes
0
replies
1.1k
views
Finding wobble/redundant positions in an RNA string using R.
RNA
wobble-position
R
updated 1 day ago by
Ram
43k • written 6.2 years ago by
fawazfebin
▴ 100
0
votes
0
replies
830
views
Estimating sequence complexity of DNA sequence from fasta file
sequence
RepeatMasker
pacbio
updated 1 day ago by
Ram
43k • written 5.6 years ago by
epaminonda
▴ 10
0
votes
0
replies
1.4k
views
Help with Circos plot "Assumption Error" that prevents plotting a protein interactions network
CircosPlot
updated 1 day ago by
Ram
43k • written 3.3 years ago by
hniels01
• 0
0
votes
0
replies
1.1k
views
Extra adjustment variables during batch effect correction
rna-seq
ComBat
batch-effect
updated 1 day ago by
Ram
43k • written 4.3 years ago by
n,n
▴ 360
0
votes
9
replies
1.2k
views
Normalization across different single cell RNAseq experimetns
global-scaling
single-cell
scRNA-seq
batch-effect
updated 1 day ago by
Ram
43k • written 3.9 years ago by
jmah
▴ 20
0
votes
0
replies
2.6k
views
Removing batch effects from methylation beta values for molecular subtyping/cluster analysis
clustering
beta-values
batch-effect
methylation
updated 1 day ago by
Ram
43k • written 6.7 years ago by
alecmchiu
• 0
0
votes
1
reply
1.2k
views
Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis
random-effects
RNA-Seq
batch-effect
updated 1 day ago by
Ram
43k • written 6.7 years ago by
Dipro
• 0
0
votes
0
replies
1.7k
views
Accounting for hidden batch effects in differential expression analysis with DEXseq and Slueth
Batch-effect
RNA-Seq
Differential-Expression
updated 1 day ago by
Ram
43k • written 7.1 years ago by
vakul.mohanty
▴ 270
0
votes
0
replies
2.8k
views
TCGA RNAseqVer2 batch effects
TCGA
RNA-Seq
batch-effect
updated 1 day ago by
Ram
43k • written 8.5 years ago by
annadv
• 0
0
votes
7
replies
6.0k
views
Pre-processing of RNA-Seq data for WGCNA
RNA-Seq
WGCNA
removeBatchEffect
DESeq2
updated 1 day ago by
Ram
43k • written 7.6 years ago by
gokce.ouz
▴ 70
0
votes
0
replies
1.8k
views
How to get Gene Co-expression Network from RNA seq data using cor() function?
RNA-Seq
gene-expression-matrix
correlation
R
updated 1 day ago by
Ram
43k • written 6.3 years ago by
aiswaryabioinfo
▴ 30
0
votes
0
replies
1.5k
views
RIPSeeker viewRIP function fails to extract values() in GRangesList/S4 object
RIPSeq
S4
RIP
R
updated 1 day ago by
Ram
43k • written 6.2 years ago by
CrisMar
▴ 80
0
votes
0
replies
2.6k
views
Comparing lists generated by Counter() and .most_common() for AA seqs
python
amino-acid
updated 1 day ago by
Ram
43k • written 9.9 years ago by
st.ph.n
★ 2.7k
0
votes
0
replies
717
views
"No group or design set" with deAna() function in EnrichmentBrowser package
RNA-Seq
R
EnrichmentBrowser
updated 1 day ago by
Ram
43k • written 4.1 years ago by
yxswhx
• 0
0
votes
2
replies
1.0k
views
proportional hazard assumption was not satisfied for a covariate
hazard-ratios
Cox-model
survival
updated 1 day ago by
Ram
43k • written 4.3 years ago by
akutasame
▴ 40
0
votes
0
replies
119
views
sequence table for DADA2 chimera filtering
OTU
sequencetable
DADA2
1 day ago by
Ali
• 0
0
votes
0
replies
97
views
BIOM format can contain tabular data ?
BIOM
phyloseq
biomformat
R
1 day ago by
chemokine-1
▴ 10
0
votes
2
replies
191
views
Calculating percentage of cells proliferating in single cell rna seq data
statistics
scRNA-seq
proliferation
1 day ago by
mropri
▴ 150
0
votes
2
replies
202
views
VCF annotation with gnomADv4 using R package
annotation
gnomADv4
R
VCF
1 day ago by
DKA
▴ 40
0
votes
2
replies
165
views
Bedmethyl file format
bedmethyl
methylation
updated 1 day ago by
GenoMax
141k • written 1 day ago by
njornet
▴ 20
0
votes
1
reply
143
views
Annotating a dataset with gnomAD v4 using Hail
Python
Sequencing
Hail
Exome
Annotation
updated 1 day ago by
DKA
▴ 40 • written 1 day ago by
james.melhorn
• 0
0
votes
0
replies
181
views
Looking for an explanation as to what the Peak Score is from HOMER, not finding any answers on Biostars yet
Homer
ATAC-seq
1 day ago by
Ronin
• 0
0
votes
1
reply
133
views
Freyja plot error
Freyja
updated 22 hours ago by
Ram
43k • written 1 day ago by
Adyasha
• 0
0
votes
0
replies
99
views
Struggling to lift genome builds
PLINK
liftover
GWAS
updated 20 hours ago by
GenoMax
141k • written 21 hours ago by
srimmer
• 0
0
votes
1
reply
218
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
updated 20 hours ago by
bk11
★ 2.3k • written 1 day ago by
航太郎
• 0
0
votes
1
reply
1.2k
views
Controlling for batch effect in SNP-based PCA
whole-genome
PCA
batch-effect
SNP
updated 19 hours ago by
Ram
43k • written 4.7 years ago by
Ace
▴ 90
0
votes
4
replies
1.7k
views
Correcting batch effect in unevenly distributed groups
RNA-Seq
batch-effect
R
updated 19 hours ago by
Ram
43k • written 4.8 years ago by
jperezboza
▴ 20
0
votes
1
reply
824
views
How to compare differentially expressed genes among different affymatrix dataset
microarray
batch-effect
R
updated 19 hours ago by
Ram
43k • written 4.8 years ago by
Calangoa
▴ 30
0
votes
0
replies
1.1k
views
Should batch correction be performed before or after feature selection in scRNA-seq
batch-effect
scRNA-seq
feature-selection
updated 19 hours ago by
Ram
43k • written 4.9 years ago by
Lucy
▴ 140
0
votes
0
replies
1.7k
views
Batch effect and CCA
CCA
RNA-Seq
seurat
batch-effect
updated 19 hours ago by
Ram
43k • written 5.1 years ago by
akivab2
▴ 110
0
votes
3
replies
1.8k
views
How to remove batch effect in copy number segment mean
Combat
CNA
Batch-Effect
updated 19 hours ago by
Ram
43k • written 5.4 years ago by
sugus
▴ 150
0
votes
1
reply
1.3k
views
About BatchQC packages error
Batch-effect
R
updated 19 hours ago by
Ram
43k • written 6.0 years ago by
Jun
• 0
0
votes
0
replies
102
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
updated 19 hours ago by
Ram
43k • written 19 hours ago by
otieno43
▴ 20
0
votes
1
reply
2.7k
views
Can't make sva comparison despite very distinct batch effects
sva
batch-effect
updated 17 hours ago by
Ram
43k • written 6.2 years ago by
jjrin
▴ 40
0
votes
1
reply
174
views
assembly using CCS, CLR, CCS_CLR sequences together?
assembly
updated 16 hours ago by
GenoMax
141k • written 16 hours ago by
ycts
• 0
0
votes
0
replies
84
views
filter the most significant ligand and receptors in netVisual_bubble in cell chat
cellchat
14 hours ago by
synat.keam
▴ 100
0
votes
0
replies
92
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
12 hours ago by
renan.igor
• 0
0
votes
2
replies
256
views
How can I solve this error?
metal
10 hours ago by
22211020193
• 0
0
votes
0
replies
66
views
Issues with SnpEff Assuming Circular Chromosomes in Eukaryotic Genome Analysis
snpEff
8 hours ago by
ekirsch
• 0
0
votes
4
replies
362
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
7 hours ago by
feather-W
• 0
0
votes
0
replies
60
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
5 hours ago by
P.
• 0
0
votes
0
replies
50
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau
score
tspex
5 hours ago by
bioinfo223
▴ 10
0
votes
2
replies
246
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
5 hours ago by
Kai Xin
• 0
0
votes
2
replies
245
views
GSEA analysis in R
GSEA
R
Arabidopsis
5 hours ago by
Sudip
• 0
0
votes
2
replies
163
views
RNA seq differential expression analysis
Regarding
seq
data
normalization
RNA
4 hours ago by
rrehimi
• 0
0
votes
1
reply
333
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
tree
phylogenetic
summarized
microbiome
updated 3 hours ago by
Akshay
• 0 • written 19 months ago by
Muhammad
• 0
0
votes
1
reply
81
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
updated 1 hour ago by
GenoMax
141k • written 5 hours ago by
kirillkirilenko
▴ 20
0
votes
1
reply
149
views
How to reveal real AF of variant if duplicates can't be removed (such as in amplicon-seq)
allele-frequency
amplicon-seq
updated 6 days ago by
Ram
43k • written 7 days ago by
CY
▴ 750
148 results • Page
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Recent Replies
Comment: How can I retrieve wheat lysine non-acetylated sequences from the UniProt databa
by
Elisabeth Gasteiger
★ 2.3k
See also https://www.uniprot.org/help/negative_datasets
Comment: Sheep reference genome remapping coordinates
by
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• 0
Thank you for your response As I can understand this tool takes sequence input files right? I have genome-wide genotypes instead of sequen…
Comment: How can I retrieve wheat lysine non-acetylated sequences from the UniProt databa
by
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Ok I made this into an answer. Could you please accept it as such.
Answer: How can I retrieve wheat lysine non-acetylated sequences from the UniProt databa
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me
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You can't. The data does not exist. UniProt only annotates where a lysine is know to be acetylated. There is no way that UniProt can know w…
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Are there any short read datasets available in SRA? Can you try and see how many left over reads remain after you align to both of your ass…
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From NCBI: https://www.ncbi.nlm.nih.gov/datasets/genome/GCA_001712695.1/ Use the `Download` button or `curl/datasets`.
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> But it keeps giving error Please tell us what the error is.
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Looking at the information about the BAM file in the link included at the end of this sentence, it seems that the BAM file does not contain…
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```conda install -y bioconda::packageX conda-forge::packageY``` should do what you're looking for.
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