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1,000 results • Page
6 of 20
Sort: replies
Rank
Views
Votes
Replies
3
votes
5
replies
1.8k
views
Limma/edgeR Design matrix for gender effect
RNA-Seq
batch-effect
updated 9 days ago by
Ram
43k • written 4.7 years ago by
kailsen
• 0
1
vote
5
replies
1.5k
views
How to correct unknown Batch effect?
PCA
gene-expression
DESeq2
RNA-seq
batch-effect
updated 9 days ago by
Ram
43k • written 12 months ago by
luffy
▴ 110
2
votes
5
replies
999
views
Ties in reranked list
fgsea
GSEA
updated 12 days ago by
Gordon
• 0 • written 7 months ago by
Hamza
• 0
1
vote
5
replies
406
views
Need information on how filterAndTrim function from the DADA2 pipeline was developed
filterAndTrim
dada2
updated 20 days ago by
GenoMax
141k • written 21 days ago by
Akshay
• 0
0
votes
5
replies
419
views
Error running local blastn in R using system2
blastn
NCBI
R
27 days ago by
Harrison
• 0
4
votes
5
replies
530
views
Getting refseq assembly accession numbers from list of species names
haystac
accession
refseq
assembly
ncbi
updated 21 days ago by
GenoMax
141k • written 21 days ago by
Kuldeep
• 0
5
votes
5
replies
2.1k
views
batch effect in RNAseq analysis using tophat cufflinks pipeline
RNA-Seq
tophat
batch-effect
cufflinks
updated 8 days ago by
Ram
43k • written 5.3 years ago by
yff
• 0
1
vote
4
replies
280
views
Removing batch effect using combat-seq
batch
effect
RNA-Seq
combat-seq
updated 24 days ago by
BioinfGuru
★ 1.7k • written 24 days ago by
Netanel
• 0
0
votes
4
replies
317
views
Coverage observed in introns in the Knockdown genes but not in knockout genes
RNA-seq
STAR
IGV
28 days ago by
rohitsatyam102
▴ 850
4
votes
4
replies
463
views
Error Codes in Snakemake
python
snakemake
20 days ago by
888pea
▴ 10
2
votes
4
replies
359
views
How to I use prefetch (SRAtoolkit) on multiple accessions all at one?
sratoolkit
prefetch
updated 19 days ago by
Pierre Lindenbaum
161k • written 19 days ago by
biotrekker
▴ 100
0
votes
4
replies
1.8k
views
Correcting batch effect in unevenly distributed groups
RNA-Seq
batch-effect
R
updated 8 days ago by
Ram
43k • written 4.8 years ago by
jperezboza
▴ 20
0
votes
4
replies
328
views
Identifying non-paralogous protein or nucleic acid sequences without using CD-HIT
CD-HIT
updated 20 days ago by
Ram
43k • written 10 weeks ago by
koushiksarker1977
• 0
5
votes
4
replies
2.2k
views
How do we process Kallisto output (continuous real values) for DESEQ2 analysis (which strictly require discrete count values)?
read-counts
DESEQ2
differential-gene-expression
kallisto
updated 16 days ago by
Ram
43k • written 2.7 years ago by
mrj
▴ 170
2
votes
4
replies
255
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
1 day ago by
samuelkalandarov2002
▴ 10
1
vote
4
replies
364
views
Molecular docking with Autodock
Docking
proteomics
updated 20 days ago by
Ram
43k • written 12 weeks ago by
shwetamgr1
▴ 10
0
votes
4
replies
2.0k
views
Requesting help with RNA-Seq differential gene analysis
differential-gene-expression
deseq2
updated 16 days ago by
Ram
43k • written 6.2 years ago by
sagnik
▴ 50
9
votes
4
replies
1.9k
views
Integration of RNA-Seq data with microarray data
microarray
RNA-Seq
batch-effect
R
updated 9 days ago by
Ram
43k • written 4.0 years ago by
Fahimeh.6868
▴ 30
3
votes
4
replies
353
views
Single cell analysis with "meta".tsv.gz file
Single-cell
23 days ago by
Estevão
• 0
0
votes
4
replies
337
views
Compute bootstrap values on consensus tree
phylogeny
tree
raxml
10 days ago by
pablo
▴ 300
0
votes
4
replies
496
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
7 days ago by
feather-W
• 0
2
votes
4
replies
215
views
Fetch table from clinvar database according to a list of rsid
python
clinvar
perl
updated 8 hours ago by
Ram
43k • written 23 hours ago by
ashaneev07
▴ 20
2
votes
4
replies
302
views
Number of CPUs to use by DRAP for transcriptomic assmbly
DRAP
CPU
transcriptomics
27 days ago by
Mohamed Abderrahmane
▴ 20
0
votes
4
replies
400
views
Is it reasonable to discard reads that show variation of quality across its length?
Trimming
28 days ago by
BRENO
• 0
6
votes
4
replies
2.2k
views
Is there a way to get RNAFold output for multifasta in tabular format?
RNAFold
updated 8 days ago by
jakobjung
• 0 • written 4.6 years ago by
adhirajnath14
▴ 40
0
votes
4
replies
814
views
Differential gene expression
limma
differential-gene-expression
R
updated 16 days ago by
Ram
43k • written 4.0 years ago by
innyus
▴ 40
1
vote
4
replies
370
views
Homer giving troubles
homer
HOMER
17 days ago by
naveedhasan2000
• 0
2
votes
4
replies
4.5k
views
Differential Expression Analysis with monocle and batch effect correction
single-cell
RNA-Seq
batch-effect
updated 8 days ago by
Ram
43k • written 5.9 years ago by
Poorya Parvizi
▴ 60
1
vote
4
replies
344
views
How to get human-mouse conservation score from UCSC
conservation
mouse
IGV
human
score
20 days ago by
diqixiaoyaoer
▴ 10
0
votes
4
replies
332
views
What is the samtools flag used in bamPEFragment?
deeptools
updated 14 days ago by
GenoMax
141k • written 17 days ago by
Soohyun
• 0
2
votes
4
replies
2.6k
views
DESeq2 inconsistent results
differential-gene-expression
RNA-Seq
DESeq2
updated 16 days ago by
Ram
43k • written 8.1 years ago by
Chris Gene
▴ 80
3
votes
4
replies
368
views
How to download large-scale cDNA sequences from NCBI effectively ?
NCBI.
cDNA
updated 12 days ago by
Pierre Lindenbaum
161k • written 12 days ago by
Sony
▴ 10
2
votes
4
replies
1.4k
views
How to fix Error in dat[, batch == batch_level] : (subscript) logical subscript too long when removing batch effects
microarray
combat
batch-effect
median-normalization
updated 7 days ago by
Ram
43k • written 18 months ago by
Dominique
• 0
1
vote
4
replies
263
views
cloupe to 10x format
seurat
10X
cloupe
updated 21 days ago by
Ram
43k • written 21 days ago by
M'zelle
• 0
2
votes
4
replies
6.0k
views
Batch Effect Removal in RNA-Seq Data for DGE & WGCNA. Should I omit any samples according to PCA plots?
Batch-effect
RNA-Seq
R
DESeq2
updated 7 days ago by
Ram
43k • written 7.6 years ago by
gokce.ouz
▴ 70
2
votes
4
replies
246
views
How to trim transcripts using information from NCBI contamination screen report
RNAseq
assembly
transcriptome
contamination
updated 1 day ago by
GenoMax
141k • written 2 days ago by
Lada
▴ 30
0
votes
4
replies
2.3k
views
Remove Gaps from Multiple sequence alignment
python
MSA
updated 23 days ago by
Ram
43k • written 2.5 years ago by
ramsha
• 0
7
votes
4
replies
1.4k
views
Is there any journal article to reference removeBatchEffect function from Limma?
batch
removebatcheffect
limma
rna-seq
batch-effect
updated 9 days ago by
Ram
43k • written 21 months ago by
ev97
▴ 20
1
vote
4
replies
2.8k
views
removing confounding batch effect with RUVseq
RUVseq
RNA-Seq
batch-effect
DESeq2
updated 8 days ago by
Ram
43k • written 5.1 years ago by
grant.hovhannisyan
★ 2.6k
2
votes
4
replies
368
views
Which command ro run MAKER pipeline for gene annotation ?
run.
command
to
MAKERpipeline.
updated 10 days ago by
GenoMax
141k • written 11 days ago by
Sony
▴ 10
2
votes
4
replies
1.2k
views
PLINK p value returning NA
GWAS
PLINK
updated 17 days ago by
chrchang523
10k • written 18 months ago by
Sin Yu, Lin
• 0
4
votes
4
replies
394
views
How do I install plink2 on a mac?
plink2
plink
updated 10 days ago by
zx8754
11k • written 13 days ago by
emilija.romic
▴ 10
2
votes
4
replies
299
views
I am unsure why my files are not being accepted in bedtools jaccard, any tips?
bedtools
22 days ago by
Ronin
• 0
2
votes
4
replies
291
views
What is the real meaning of relative enrichment/peak height of ChIP-seq tracks?
ChIP-seq
2 days ago by
HyperEvo
• 0
1
vote
4
replies
1.3k
views
Comparing RNA-Seq data to online databases
RNA-Seq
batch-effect
updated 9 days ago by
Ram
43k • written 4.7 years ago by
Victoria
▴ 10
1
vote
4
replies
392
views
Is it just me or has www.ensembl.org been broken for a while?
ensembl
14 days ago by
gene_biostars
• 0
3
votes
4
replies
652
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
3 days ago by
rahu
• 0
0
votes
4
replies
415
views
Gene Ontology question
differential-expression
Gene-ontology
updated 16 days ago by
Ram
43k • written 25 days ago by
Bhawna
• 0
3
votes
4
replies
424
views
biomaRt error for different R version
biomaRt
R
updated 7 days ago by
GenoMax
141k • written 8 days ago by
manaswwm
▴ 490
1
vote
4
replies
2.4k
views
Batch effect control in GWAS data.
Batch-effect
omniexpress
GWAS
GSA
updated 8 days ago by
Ram
43k • written 4.8 years ago by
saksis.rihards
▴ 10
1,000 results • Page
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