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comments
0
votes
0
replies
401
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Comment:
Comment: differential gene expression analysis when not all samples have an untreated cou
15 days ago by
nhaus
▴ 310
2
votes
2
replies
401
views
differential gene expression analysis when not all samples have an untreated counterpart
differential-expression
edgeR
15 days ago by
nhaus
▴ 310
0
votes
0
replies
112
views
Surrogate variable analysis for paired RNA seq experiment
sva
rnaseq
ruvseq
22 days ago by
nhaus
▴ 310
1
vote
1
reply
310
views
Answer:
Answer: Analyzing dataset with counts and TMM values?
10 weeks ago by
nhaus
▴ 310
0
votes
0
replies
312
views
Comment:
Comment: pseudobulk differential expression design matrix
10 weeks ago by
nhaus
▴ 310
0
votes
0
replies
312
views
Comment:
Comment: pseudobulk differential expression design matrix
10 weeks ago by
nhaus
▴ 310
0
votes
3
replies
312
views
pseudobulk differential expression design matrix
pseudobulk
single-cell
scRNA-seq
10 weeks ago by
nhaus
▴ 310
0
votes
0
replies
274
views
Correcting for covariates in GWAS studies and differential gene expression analysis
batch-correction
GWAS
updated 6 months ago by
Ram
43k • written 6 months ago by
nhaus
▴ 310
0
votes
1
reply
610
views
GSA type of input data
vst
GSEA
DESeq2
updated 16 months ago by
Gordon Smyth
★ 7.1k • written 16 months ago by
nhaus
▴ 310
0
votes
1
reply
467
views
Quantifying GFP and GAL4 reads in drosophila
salmon
qunatification
read
updated 18 months ago by
seidel
11k • written 18 months ago by
nhaus
▴ 310
0
votes
0
replies
738
views
Answer:
Answer: How to replace Gene Symbols with Ensembl ID?
18 months ago by
nhaus
▴ 310
1
vote
0
replies
381
views
Libtype differs for all samples although same library preparation
salmon
rnaseq
libtype
18 months ago by
nhaus
▴ 310
1
vote
1
reply
2.9k
views
Comment:
Comment: DESeq2 design formula considerations
18 months ago by
nhaus
▴ 310
6
votes
6
replies
2.9k
views
DESeq2 design formula considerations
differential
RNAseq
expression
analysis
DGE
DESeq2
updated 18 months ago by
LauferVA
4.2k • written 18 months ago by
nhaus
▴ 310
1
vote
1
reply
848
views
Comment:
Comment: gvcf to bam or fastq
19 months ago by
nhaus
▴ 310
0
votes
0
replies
1.7k
views
Comment:
Comment: Tuning seurat integration strength to prevent overcorrection
19 months ago by
nhaus
▴ 310
0
votes
1
reply
1.7k
views
Comment:
Comment: Tuning seurat integration strength to prevent overcorrection
19 months ago by
nhaus
▴ 310
0
votes
4
replies
1.7k
views
Tuning seurat integration strength to prevent overcorrection
scRNA
seurat
19 months ago by
nhaus
▴ 310
2
votes
1
reply
572
views
Answer:
Answer: fasta file parsing
20 months ago by
nhaus
▴ 310
0
votes
3
replies
874
views
Function/Package which shows how cells correspond to one another between UMAPs
scRNAseq
visualization
updated 21 months ago by
ATpoint
82k • written 21 months ago by
nhaus
▴ 310
0
votes
0
replies
874
views
Comment:
Comment: Function/Package which shows how cells correspond to one another between UMAPs
21 months ago by
nhaus
▴ 310
3
votes
2
replies
718
views
Why do highly expressed genes vary more than lowly expressed genes?
single
cell
statistics
updated 13 months ago by
Mae
• 0 • written 21 months ago by
nhaus
▴ 310
0
votes
0
replies
1.2k
views
Comment:
Comment: Using Leiden algorithm to cluster bulk RNA samples
2.1 years ago by
nhaus
▴ 310
4
votes
2
replies
1.2k
views
Using Leiden algorithm to cluster bulk RNA samples
clustering
RNAseq
Leiden
2.1 years ago by
nhaus
▴ 310
2
votes
1
reply
503
views
How to check if a certain phenotype is over-represented in a cluster
cluster
overrepresentation
updated 2.1 years ago by
Jean-Karim Heriche
27k • written 2.1 years ago by
nhaus
▴ 310
1
vote
1
reply
914
views
Answer:
Answer: Equipment for bioinformatics.
2.1 years ago by
nhaus
▴ 310
0
votes
0
replies
2.1k
views
Comment:
Comment: plink2 tell "--glm" to use dosage instead of hardcalls
2.1 years ago by
nhaus
▴ 310
0
votes
1
reply
903
views
What to do if covariates in design matrix of limma are confounded
gene
expression
differential
limma
updated 2.2 years ago by
ATpoint
82k • written 2.2 years ago by
nhaus
▴ 310
2
votes
2
replies
1.4k
views
Finemapping - how to define a locus?
finemapping
locus
updated 2.2 years ago by
1311703846
• 0 • written 2.8 years ago by
nhaus
▴ 310
2
votes
1
reply
960
views
Comment:
Comment: differential expression RNASeq DESeq2
2.2 years ago by
nhaus
▴ 310
3
votes
1
reply
960
views
Answer:
Answer: differential expression RNASeq DESeq2
2.2 years ago by
nhaus
▴ 310
0
votes
0
replies
303
views
Relate longitudinal measurement of quantitative variable with gene expression data
RNA-seq
longitudinal
2.2 years ago by
nhaus
▴ 310
0
votes
1
reply
505
views
Expression of genes in KEGG pathway
KEGG
over
representation
analysis
updated 2.3 years ago by
seidel
11k • written 2.3 years ago by
nhaus
▴ 310
0
votes
0
replies
364
views
Tools to visualize 2D RNA Heterodimer
visualization
RNA
2.3 years ago by
nhaus
▴ 310
0
votes
0
replies
3.2k
views
Answer:
Answer: Can anyone share me a good GATK4 workflow
2.5 years ago by
nhaus
▴ 310
0
votes
0
replies
680
views
Tool:
Genotype Imputation Workflow
gwas
imputation.
2.6 years ago by
nhaus
▴ 310
0
votes
1
reply
1.4k
views
Comment:
Comment: Strange speed up in GATK LeftAlignIndels
2.6 years ago by
nhaus
▴ 310
15
votes
2
replies
2.1k
views
Tutorial:
Germline variant calling pipeline using Snakemake
snakemake
GATK
germline_variant_calling
updated 18 months ago by
brunobsouzaa
▴ 830 • written 2.6 years ago by
nhaus
▴ 310
2
votes
1
reply
814
views
command line VEP and VEP web interface return different results.
ensembl
vep
updated 2.8 years ago by
Emily
23k • written 2.8 years ago by
nhaus
▴ 310
0
votes
0
replies
518
views
Plink genomic inflation estimate
plink
inflation
genomic
GWAS
2.8 years ago by
nhaus
▴ 310
1
vote
3
replies
2.1k
views
plink2 tell "--glm" to use dosage instead of hardcalls
plink2
gwas
imputation
2.1 years ago by
nhaus
▴ 310
1
vote
1
reply
2.1k
views
Answer:
Answer: plink2 tell "--glm" to use dosage instead of hardcalls
2.8 years ago by
nhaus
▴ 310
0
votes
0
replies
1.4k
views
Minimac4 how is R2 calculated
GWAS
minimac4
imputation
2.8 years ago by
nhaus
▴ 310
0
votes
0
replies
1.2k
views
Comment:
Comment: IMPUTE2 minimal number of SNPs per chunk
2.8 years ago by
nhaus
▴ 310
0
votes
2
replies
1.2k
views
Comment:
Comment: IMPUTE2 minimal number of SNPs per chunk
2.8 years ago by
nhaus
▴ 310
2
votes
6
replies
1.2k
views
IMPUTE2 minimal number of SNPs per chunk
impute
gwas
updated 2.8 years ago by
LauferVA
4.2k • written 2.8 years ago by
nhaus
▴ 310
0
votes
1
reply
614
views
IMPUTE2 limit to only one population of 1000G Reference
GWAS
impute
1000g
updated 2.8 years ago by
LauferVA
4.2k • written 2.8 years ago by
nhaus
▴ 310
0
votes
0
replies
616
views
maxT permutation in plink
plink
gwas
2.8 years ago by
nhaus
▴ 310
0
votes
0
replies
861
views
Comment:
Comment: Why are there nucleotides in the reference genome which are also minor alleles i
2.8 years ago by
nhaus
▴ 310
2
votes
4
replies
861
views
Why are there nucleotides in the reference genome which are also minor alleles in the 1000 genomes project
reference
genotype
minor
allele
updated 2.8 years ago by
WouterDeCoster
47k • written 2.8 years ago by
nhaus
▴ 310
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