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527 results • Page
3 of 11
Sort: Votes
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Views
Votes
Replies
1
vote
1
reply
2.7k
views
Plotting a PCA Plot from SVASeq results
pca
ruvseq
sva
svaseq
batch-effect
updated 3 days ago by
Ram
43k • written 6.2 years ago by
jjrin
▴ 40
1
vote
1
reply
159
views
permutation test in edgeR
rna-seq
edgeR
updated 12 days ago by
dariober
14k • written 12 days ago by
Netanel
• 0
1
vote
1
reply
812
views
Question for 3 prime bias in rna short read and long read (illumina, ont, pacbio)
rna-seq
short-read
long-read
updated 14 days ago by
Ram
43k • written 11 months ago by
shinyjj
▴ 50
1
vote
0
replies
149
views
phasing tumor long-reads
nanopore
ONT
haplotag
phasing
tumor
8 days ago by
eesiribloom
▴ 80
1
vote
1
reply
339
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
18 hours ago by
renan.igor
• 0
1
vote
6
replies
499
views
Quest about the input data for PCA analysis
PCA
28 days ago by
tujuchuanli
▴ 100
1
vote
1
reply
160
views
Help/Direction Needed for Data Analysis of RNA
Sequencing
RNA-seq
DNA-Seq
updated 3 days ago by
dsull
★ 5.8k • written 3 days ago by
niruf
• 0
1
vote
1
reply
164
views
Do I need to go back and filter my long-reads?
alignment
nanopore
filtering
QC
ONT
updated 4 days ago by
GenoMax
141k • written 5 days ago by
eesiribloom
▴ 80
1
vote
1
reply
187
views
Tool for gene function identification
Gene-Function
updated 17 days ago by
Ram
43k • written 18 days ago by
Estevão
• 0
1
vote
0
replies
96
views
The majority of the sequences in Trinity ID do not start from start codons. Can the sequences still be used for primer design and validation?
Primers
TRINITY
3 hours ago by
mathavanbioinfo
▴ 90
1
vote
4
replies
2.4k
views
Batch effect control in GWAS data.
Batch-effect
omniexpress
GWAS
GSA
updated 2 days ago by
Ram
43k • written 4.8 years ago by
saksis.rihards
▴ 10
1
vote
2
replies
1.9k
views
Remove batch effect from exome data
NGS
exome-sequencing
batch-effect
updated 1 day ago by
Ram
43k • written 6.5 years ago by
Alternative
▴ 270
1
vote
0
replies
1.8k
views
Using SVA with RRBS data
sva
batch-effect
RRBS
updated 3 days ago by
Ram
43k • written 7.1 years ago by
mrodrigues.fernanda
▴ 50
1
vote
2
replies
205
views
convert a seurat object to expressionset
Seurat
9 days ago by
Bine
▴ 60
1
vote
3
replies
341
views
how to do the repeatability filtering of vcf files?
snp
vcf.
updated 18 days ago by
Pierre Lindenbaum
161k • written 19 days ago by
Max
• 0
1
vote
4
replies
2.2k
views
Remove batch effect for prediction of RNA-seq data
RNA-Seq
batch-effect
Random-Forest
updated 2 days ago by
Ram
43k • written 4.7 years ago by
Vlad
▴ 10
1
vote
2
replies
1.7k
views
Batch effects and MDSPlot in limma
limma
Batch-effect
MDS
Galaxy
updated 3 days ago by
Ram
43k • written 4.8 years ago by
sonayuv
• 0
1
vote
2
replies
267
views
Tumour purity and ploidy estimation
Copy-number
Whole-exome-sequencing
4 days ago by
bp22
▴ 80
1
vote
1
reply
655
views
Save experiment with batch effects - Protein microarray
statistics
protein-array
batch-effect
updated 3 days ago by
Ram
43k • written 4.4 years ago by
s.lima.diogenes
▴ 10
1
vote
1
reply
188
views
ComplexHeatmap anno_mark position changes with height of gene expression heatmap
ComplexHeatmap
5 days ago by
CTLong
▴ 110
1
vote
2
replies
1.0k
views
An issue with application of SPAdes genome assembly in Galaxy
Galaxy
SPAdes
updated 17 days ago by
Ram
43k • written 2.4 years ago by
adnan.lahuf
• 0
1
vote
0
replies
132
views
Seeking Advice on Gene Ontology Analysis for Bulk RNA-Seq Data Without Control Samples
Gene-ontology
RNA-seq
R
updated 4 days ago by
Ram
43k • written 4 days ago by
Oscar
▴ 10
1
vote
3
replies
316
views
Ensembl gene id conversion
biomart
ensembl
updated 4 days ago by
ATpoint
81k • written 6 days ago by
naveedhasan2000
• 0
1
vote
2
replies
1.2k
views
Multi-fasta file for gffread
gffread
gtf
fasta
updated 29 days ago by
alnam
▴ 10 • written 2.4 years ago by
Vitor1
▴ 120
1
vote
3
replies
246
views
CCA with random effects model
CCA
updated 18 days ago by
dariober
14k • written 18 days ago by
leranwangcs
▴ 120
1
vote
3
replies
1.7k
views
Using Nanoplot to asses quality of ONT data
ONT
Long-read-sequencing
NanoPlot
updated 14 days ago by
Ram
43k • written 2.2 years ago by
matt81rd
▴ 10
1
vote
3
replies
2.0k
views
psmc bootstrapping help
bootstrap
psmc
updated 25 days ago by
xuby963
• 0 • written 3.2 years ago by
truebeliever24
▴ 50
1
vote
0
replies
1.0k
views
interpretation of trajectory and batch effect
monocle3
batch-effect
trajectory
updated 11 days ago by
Ram
43k • written 3.5 years ago by
tushard1987
▴ 10
1
vote
2
replies
241
views
Can I compare kallisto counts from samples with different amount of reads?
RNA-seq
kallisto
3 days ago by
bioinfo
▴ 150
1
vote
2
replies
268
views
BWA MEM Alignment mapped small part of the reads!!
bwa
mem
updated 24 days ago by
bioruffo
▴ 40 • written 25 days ago by
Bunit
• 0
1
vote
0
replies
365
views
Differential expression analysis on multiple integrated datasets
microarray
Z-score
limma
differential-gene-expression
meta-analysis
updated 10 days ago by
Ram
43k • written 2.3 years ago by
michael.s
▴ 10
1
vote
2
replies
819
views
Replacing default numbers with geneNames in enhancedVolcano
EnhancedVolcano
updated 17 days ago by
Ram
43k • written 2.6 years ago by
Mohan
• 0
1
vote
3
replies
4.1k
views
Evaluating removing batch effect tools with PCA or MDS?
bioconductor
limma
sva
r
batch-effect
updated 1 day ago by
Ram
43k • written 7.6 years ago by
Lluís R.
★ 1.2k
1
vote
4
replies
374
views
what is the normal range of htseq-count output for homo sapiens RNA-Seq
Transcriptomics
htseq-count
RNA-Seq
NGS
hisat2
updated 7 days ago by
BioinfGuru
★ 1.7k • written 8 days ago by
Morteza
• 0
1
vote
1
reply
448
views
PLINK multivariable GLM output: p-value without BETA and SE
linear-model
glm
plink
updated 11 days ago by
chrchang523
10k • written 11 days ago by
dsbusiness135
▴ 10
1
vote
2
replies
804
views
What type of normalization does removeBatchEffect function require as the input?
batch
limma
removeBatchEffect
rna-seq
batch-effect
updated 3 days ago by
Ram
43k • written 21 months ago by
ev97
▴ 20
1
vote
7
replies
881
views
GATK Mutect2 Input files reference and features have incompatible contigs: No overlapping contigs found.
hg19
Mutect2
GATK
Variant-Calling
updated 24 days ago by
Ram
43k • written 9 months ago by
Manuel Sokolov Ravasqueira
▴ 100
1
vote
2
replies
318
views
BAM to CRAM and BAM recover with smaller size
BAM
samtools
CRAM
updated 17 days ago by
jkbonfield
★ 1.2k • written 5 weeks ago by
geocarvalho
▴ 360
1
vote
1
reply
207
views
Retrieve a % coverage for each transcript
RNA-seq
updated 2 days ago by
Ram
43k • written 2 days ago by
jammydodger123456
▴ 40
1
vote
0
replies
112
views
Downloading immne signature and pathway signature genes form publication and KEGG
genes
TRANSCRIPTOME_signature
25 days ago by
mrazib0210
▴ 10
1
vote
4
replies
345
views
Molecular docking with Autodock
Docking
proteomics
updated 14 days ago by
Ram
43k • written 11 weeks ago by
shwetamgr1
▴ 10
1
vote
0
replies
669
views
Conditions for valid batch effect correction
r
batch-effect
updated 3 days ago by
Ram
43k • written 5.1 years ago by
Sebastian Hesse
▴ 340
1
vote
0
replies
182
views
Synthetic lethality and cancer database
interaction
lethal
synthetic
22 days ago by
Shicheng Guo
★ 9.4k
1
vote
4
replies
394
views
what's the genomic location and name of gene responsible for orange and black patches in calico cats
genomes
updated 14 hours ago by
Matthias Zepper
4.5k • written 16 hours ago by
Ann
★ 2.4k
1
vote
2
replies
620
views
Nanopore multisample variant calling
SNPs
nanopore
SNP-calling
variants
multisample
21 days ago by
colindaven
6.4k
1
vote
3
replies
258
views
True variants selection
vcf
bcftools
updated 8 days ago by
dthorbur
★ 1.9k • written 9 days ago by
maevalefeuvre
• 0
1
vote
2
replies
912
views
vg surject for long reads
long-reads
vg
variation-graph
surject
updated 14 days ago by
Ram
43k • written 23 months ago by
ved_vyas
▴ 10
1
vote
0
replies
144
views
Contradictions in GSEA results
GSEA
Enrichment-analysis
PEA
updated 22 days ago by
Ram
43k • written 22 days ago by
Tolga
▴ 30
1
vote
4
replies
270
views
Removing batch effect using combat-seq
batch
effect
RNA-Seq
combat-seq
updated 18 days ago by
BioinfGuru
★ 1.7k • written 19 days ago by
Netanel
• 0
1
vote
2
replies
194
views
In need of help with my RNA velocity trajectory inference pipeline!
RNAvelocity
11 days ago by
phhelou5
• 0
527 results • Page
3 of 11
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