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960 results • Page
6 of 20
Sort: Views
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Views
Votes
Replies
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 18 days ago by
Ram
43k • written 6.8 years ago by
Dipro
• 0
0
votes
1
reply
1.2k
views
Controlling for batch effect in SNP-based PCA
whole-genome
PCA
batch-effect
SNP
updated 18 days ago by
Ram
43k • written 4.7 years ago by
Ace
▴ 90
11
votes
11
replies
1.2k
views
7 follow
How I know if it is a batch effect or are real differences between my controls and treatments?
RNA-seq
Transcriptomics
ComBat-seq
Batch-Effect
updated 26 days ago by
GenoMax
142k • written 29 days ago by
alejandro.mejiam1
▴ 10
0
votes
9
replies
1.2k
views
Normalization across different single cell RNAseq experimetns
global-scaling
single-cell
scRNA-seq
batch-effect
updated 18 days ago by
Ram
43k • written 3.9 years ago by
jmah
▴ 20
0
votes
0
replies
1.2k
views
Batch estimate using kBET
batch-effect
kbet
updated 17 days ago by
Ram
43k • written 4.1 years ago by
getanid123
• 0
0
votes
5
replies
1.2k
views
RNAseq differential gene expression analysis yield results which come from digestive content
differential-gene-expression
RNA-Seq
updated 26 days ago by
Ram
43k • written 6.4 years ago by
pablo61991
▴ 90
0
votes
0
replies
1.2k
views
Extra adjustment variables during batch effect correction
rna-seq
ComBat
batch-effect
updated 18 days ago by
Ram
43k • written 4.3 years ago by
n,n
▴ 360
2
votes
1
reply
1.1k
views
recommendation needed: scRNA-seq batch effect correction methods that can be used for differential expression
single-cell
RNA-Seq
batch-effect
updated 27 days ago by
Ram
43k • written 3.7 years ago by
changxu.fan
▴ 70
0
votes
3
replies
1.1k
views
Batch effect for SNP array
sva
combat
batch-effect
SNP
updated 20 days ago by
Ram
43k • written 4.2 years ago by
Taylor95
▴ 10
0
votes
1
reply
1.1k
views
Ensembl assembly choice for RNA-Seq reference mapping
RNA-Seq
ensembl
STAR
alignment
Assembly
updated 24 days ago by
AHerik
▴ 20 • written 5.0 years ago by
eoin
▴ 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 18 days ago by
Ram
43k • written 4.9 years ago by
Lucy
▴ 140
2
votes
2
replies
1.1k
views
Can we directly use batch corrected gene expression (Bulk RNA-seq) for further downstream analyses?
RNA-Seq
batch-effect
updated 17 days ago by
Ram
43k • written 5.0 years ago by
tigeradab
▴ 60
2
votes
2
replies
1.1k
views
DESeq2 for Differential gene expression
differential-gene-expression
updated 26 days ago by
Ram
43k • written 3.8 years ago by
sana777munquad
▴ 10
3
votes
0
replies
1.1k
views
Tool:
Sars-Cov-2 Genome & ACE 2 Exploration
sequence
alignment
SNP
genome
11 hours ago by
Ibrahim Tanyalcin
★ 1.2k
0
votes
16
replies
1.1k
views
What is the sequence origin in human plasma?
human
sequence
cfDNA
22 days ago by
biwdpang
• 0
0
votes
3
replies
1.1k
views
Discrepancy between E() Values in Blastp Search - HELP
BLAST
E-value
Blastp
Protein
updated 18 days ago by
Ram
43k • written 5.3 years ago by
minasmayth
• 0
11
votes
12
replies
1.1k
views
Downloaded pdb's on rcsb.org
rcsb
pdb
updated 16 days ago by
Ram
43k • written 17 days ago by
iamsmor
• 0
0
votes
0
replies
1.1k
views
Finding wobble/redundant positions in an RNA string using R.
RNA
wobble-position
R
updated 18 days ago by
Ram
43k • written 6.2 years ago by
fawazfebin
▴ 100
7
votes
7
replies
1.1k
views
Prediction tools summary - zero values
statistics
updated 19 days ago by
Дана
• 0 • written 6 months ago by
Lukas
▴ 50
1
vote
2
replies
1.1k
views
News:
The GDC Legacy Archive is retiring soon.
genomic-data-commons
tcga
gdc
14 hours ago by
Zhenyu Zhang
★ 1.2k
0
votes
0
replies
1.1k
views
Isoforms or Duplications
Differential-Gene-Expression
RNA-Seq
updated 26 days ago by
Ram
43k • written 7.1 years ago by
sanathoi
▴ 10
1
vote
0
replies
1.1k
views
interpretation of trajectory and batch effect
monocle3
batch-effect
trajectory
updated 27 days ago by
Ram
43k • written 3.5 years ago by
tushard1987
▴ 10
1
vote
4
replies
1.1k
views
Filtering qscore on dorado
dorado
filtering
QC
nanopore
Guppy
3 days ago by
eebloom
▴ 80
5
votes
2
replies
1.0k
views
How to perform batch correction when we have only single condition?
sva
combat
batch-effect
DESeq2
updated 18 days ago by
Ram
43k • written 3.8 years ago by
svp
▴ 680
0
votes
6
replies
1.0k
views
Considering that the basal expression level is not 0 for the calculation of the differential expression
DESEQ2
RNA-Seq
Differential-gene-Expression
updated 26 days ago by
Ram
43k • written 5.8 years ago by
Pin.Bioinf
▴ 340
1
vote
3
replies
1.0k
views
problem with facing strange gene name in TCGA data
TCGA
RNA-Seq
batch-effect
updated 18 days ago by
Ram
43k • written 5.6 years ago by
modarzi
▴ 170
2
votes
2
replies
1.0k
views
Batch correct batch 2 while leaving batch 1 unchanged.
limma
machine-learning
batch-effect
updated 17 days ago by
Ram
43k • written 3.8 years ago by
i.sudbery
19k
3
votes
7
replies
1.0k
views
Can I use batch effect correction "by parts"?
ComBat
RNA-Seq
batch-effect
updated 18 days ago by
Ram
43k • written 4.3 years ago by
n,n
▴ 360
0
votes
2
replies
1.0k
views
proportional hazard assumption was not satisfied for a covariate
hazard-ratios
Cox-model
survival
updated 18 days ago by
Ram
43k • written 4.4 years ago by
akutasame
▴ 40
5
votes
14
replies
1.0k
views
Not getting any modification calls in nanopore reads with dorado basecaller
mofications
dorado
basecalling
nanopore
methylation
updated 24 days ago by
GenoMax
142k • written 6 weeks ago by
njornet
▴ 20
8
votes
16
replies
1.0k
views
How to convert plink files to Hapmap Format
GWAS
Plink
updated 9 days ago by
bk11
★ 2.4k • written 8 weeks ago by
Sofia
• 0
3
votes
2
replies
1.0k
views
Can I take 'organ type' as a batch effect and use ComBat to remove organ dependent variations?
RNA-Seq
Cross-Species
SVA
ComBat
Batch-Effect
updated 18 days ago by
Ram
43k • written 4.7 years ago by
rodguinea
• 0
2
votes
5
replies
1.0k
views
Ties in reranked list
fgsea
GSEA
updated 22 days ago by
Gordon
• 0 • written 7 months ago by
Hamza
• 0
1
vote
10
replies
994
views
Troubleshooting RNA-seq data with DNA contamination
RNA-seq
DESeq2
DNA-contamination
11 days ago by
DKA
▴ 40
2
votes
3
replies
988
views
Treating "patient" as a batch effect
ComBat_seq
DESeq2
batch-Effect
updated 18 days ago by
Ram
43k • written 17 months ago by
Mia
▴ 20
2
votes
3
replies
975
views
Method to detect genome doubling
CNV
genome doubling
updated 13 days ago by
LauferVA
4.2k • written 4.5 years ago by
CY
▴ 750
2
votes
1
reply
966
views
How to evaluate the performance of an RNA-seq pipeline
Differential-gene-expression
RNA-Seq
R
DESeq2
updated 26 days ago by
Ram
43k • written 4.0 years ago by
nhaus
▴ 310
2
votes
2
replies
955
views
Is there a file information dictionary for files downloaded from ENCODE through batch download?
ENCODE
updated 18 days ago by
Ram
43k • written 4.6 years ago by
burcakotlu
▴ 40
4
votes
13
replies
947
views
RNAseq of primary tumor and metastases in two different organ
metastases
RNA-seq
DEG
R
updated 18 days ago by
BioinfGuru
★ 1.7k • written 24 days ago by
matteo.levorato
• 0
1
vote
1
reply
942
views
Easiest way to Get gene Id's from Affymetrix Probeset id's
microarray
differential-gene-expression
r
updated 26 days ago by
Ram
43k • written 5.5 years ago by
tw617
▴ 40
2
votes
3
replies
938
views
Possible approach to select normal tissue samples for cancer RNA-Seq data without reference data for downstream analyses
R
RNA-Seq
DE
batch-effect
GTEx
updated 20 days ago by
Ram
43k • written 4.1 years ago by
svlachavas
▴ 790
2
votes
5
replies
930
views
Retrieval of Active site information programmatically
Catalytic
Python
Active
PDB
site
Site
updated 6 days ago by
Wayne
★ 2.0k • written 2.0 years ago by
arinjoy
• 0
2
votes
11
replies
915
views
Questions about a bug when transferring cram file to bam file
sequence
samtools
bcftools
updated 6 days ago by
jkbonfield
★ 1.2k • written 18 days ago by
me
• 0
2
votes
7
replies
906
views
Removing duplicates
duplicates
ONT
minimap2
updated 16 days ago by
noodle
▴ 580 • written 18 days ago by
quentinperriere
• 0
3
votes
6
replies
901
views
Any problem re-using last year's RNA-Seq data in this year's analysis?
RNA-Seq
batch-effect
updated 18 days ago by
Ram
43k • written 3.7 years ago by
oakhamwolf
▴ 20
1
vote
1
reply
900
views
Any strategies to compare gene and protein expression dataset and perform differential expression
gene-expression
R
protein-expression
Differential-gene-expression
Volcano-plot
updated 26 days ago by
Ram
43k • written 2.3 years ago by
vin23
▴ 10
2
votes
9
replies
897
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 11 days ago by
LauferVA
4.2k • written 6 months ago by
Gnana
• 0
1
vote
8
replies
896
views
Adding CB tag to bam file
samtools
bam
updated 10 days ago by
Pierre Lindenbaum
161k • written 16 days ago by
Maria
• 0
3
votes
9
replies
896
views
How can I retrieve wheat lysine non-acetylated sequences from the UniProt database?
UniProt
updated 17 days ago by
Elisabeth Gasteiger
★ 2.4k • written 17 days ago by
Jacky
• 0
0
votes
0
replies
895
views
Advice on group specific condition effect and model matrix in deseq2
deseq2
batch-effect
updated 20 days ago by
Ram
43k • written 4.1 years ago by
Mozart
▴ 330
960 results • Page
6 of 20
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