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questions
13
votes
25
replies
4.4k
views
7 follow
VEP output has no gene names
alignment
sequencing
vep
updated 11 months ago by
barslmn
★ 2.2k • written 5.8 years ago by
Gene_MMP8
▴ 240
2
votes
6
replies
1.5k
views
Bad quality fastq files for analysis
quality
bad
DNA-seq
fastq
alignment
14 months ago by
Gene_MMP8
▴ 240
2
votes
1
reply
566
views
Renormalize after row/column deletion from TPM data in RNA-seq
normalization
TPM
RNA-seq
updated 15 months ago by
ATpoint
82k • written 15 months ago by
Gene_MMP8
▴ 240
0
votes
3
replies
650
views
Unable to validate biomarkers obtained from single-cell RNA-seq data
biomarkers
single-cell
Seurat
updated 15 months ago by
ATpoint
82k • written 15 months ago by
Gene_MMP8
▴ 240
4
votes
3
replies
2.2k
views
Sequence identity between two protein sequences
Identity
Protein
updated 20 months ago by
Andrzej Zielezinski
11k • written 20 months ago by
Gene_MMP8
▴ 240
11
votes
10
replies
7.6k
views
Samtools flagstat results
next-gen
updated 6 months ago by
LuciaNhu
• 0 • written 6.7 years ago by
Gene_MMP8
▴ 240
1
vote
0
replies
466
views
Gene ontology enrichment vs. REACTOME pathway analysis
GO
REACTOME
23 months ago by
Gene_MMP8
▴ 240
0
votes
1
reply
970
views
scRNA-seq analysis using TPM counts
RNA-seq
TPM
singlecell
Seurat
updated 2.1 years ago by
Soheil
▴ 110 • written 2.1 years ago by
Gene_MMP8
▴ 240
0
votes
0
replies
599
views
Confusion regarding manual inclusion of read group information from fastq files
readgroup
sequencing
bwa
fatsq
updated 2.5 years ago by
Pierre Lindenbaum
161k • written 2.5 years ago by
Gene_MMP8
▴ 240
0
votes
0
replies
525
views
Separate vcf file creation for matched tumor-normal samples
vcf
2.7 years ago by
Gene_MMP8
▴ 240
1
vote
1
reply
676
views
Extract batch variable from GEO dataset
GEO
batch_analysis
microarray
updated 2.7 years ago by
ATpoint
82k • written 2.7 years ago by
Gene_MMP8
▴ 240
0
votes
0
replies
462
views
Extract peptide information from proteomics data
proteomics
peptide
2.8 years ago by
Gene_MMP8
▴ 240
0
votes
0
replies
467
views
Power calculation for microarray data
statistical_power
microarray
2.8 years ago by
Gene_MMP8
▴ 240
3
votes
5
replies
4.4k
views
Manual annotation of cell types in single cell RNA-seq
Seurat
single_cell
annotation
updated 2.8 years ago by
Friederike
8.9k • written 2.8 years ago by
Gene_MMP8
▴ 240
2
votes
1
reply
985
views
Why am I getting microRNA genes from a 10X genomics dataset?
RNA-seq
microRNA
2.9 years ago by
Gene_MMP8
▴ 240
1
vote
3
replies
885
views
Normalizing across multiple RNA-seq datasets
RNASeq
normalization
updated 3.0 years ago by
i.sudbery
19k • written 3.0 years ago by
Gene_MMP8
▴ 240
8
votes
4
replies
1.0k
views
Pathway analysis of a list of possible cancer driver genes
pathway analysis
cancer
driver genes
updated 3.4 years ago by
Kevin Blighe
88k • written 3.4 years ago by
Gene_MMP8
▴ 240
3
votes
2
replies
4.8k
views
Include gene ontology codes in the plots generated using the enrochplot package
functional enrichment analysis
gsea
enrichplot
updated 3.4 years ago by
ATpoint
82k • written 3.4 years ago by
Gene_MMP8
▴ 240
0
votes
1
reply
1.1k
views
Types of base substitutions
genome
SNP
3.5 years ago by
Gene_MMP8
▴ 240
1
vote
2
replies
2.9k
views
How to run bedtools from inside a python program
bedtools
python
commandline
updated 3.5 years ago by
Joe
21k • written 3.5 years ago by
Gene_MMP8
▴ 240
8
votes
6
replies
2.5k
views
Batch effect removal with the help of sva
SVA
batch-effect
gene-expression
updated 5 weeks ago by
Ram
43k • written 3.6 years ago by
Gene_MMP8
▴ 240
0
votes
0
replies
712
views
Feature extraction pipeline for CHASMplus
CHASMplus
3.6 years ago by
Gene_MMP8
▴ 240
2
votes
3
replies
1.2k
views
Convert variant coordinates from one genome build to the other
sequence
variant
genome_build
3.6 years ago by
Gene_MMP8
▴ 240
1
vote
3
replies
788
views
Conserved regions around mutations
next-gen
sequencing
3.8 years ago by
Gene_MMP8
▴ 240
3
votes
1
reply
1.3k
views
Effect of sample size on log fold change in gene expression analysis
RNA-Seq
R
updated 4.0 years ago by
dsull
★ 6.0k • written 4.0 years ago by
Gene_MMP8
▴ 240
1
vote
1
reply
613
views
Amino acid substitution to nucleotide substitution conversion
R
sequencing
4.0 years ago by
Gene_MMP8
▴ 240
1
vote
1
reply
686
views
Similarity between DNA strings of two different classes
sequencing
similarity
4.1 years ago by
Gene_MMP8
▴ 240
1
vote
2
replies
766
views
scRNA data for human muscle cells
RNA-Seq
scRNA
machinelearning
4.1 years ago by
Gene_MMP8
▴ 240
6
votes
9
replies
1.3k
views
How to download passenger mutations for cancer
passenger mutations
driver mutations
cancer
updated 4.2 years ago by
Collin
▴ 1000 • written 4.2 years ago by
Gene_MMP8
▴ 240
0
votes
0
replies
773
views
Unable to understand the input to the tablemaker tool
RNA-Seq
software error
4.2 years ago by
Gene_MMP8
▴ 240
0
votes
0
replies
563
views
Common bioinformatics tools required to analyze the mutational distribution in mice genomes
genome
next-gen
4.4 years ago by
Gene_MMP8
▴ 240
3
votes
5
replies
1.2k
views
Estimate gene expression data
gene
updated 4.4 years ago by
Biostar
20 • written 5.2 years ago by
Gene_MMP8
▴ 240
5
votes
6
replies
893
views
Mutation calling for pediatric cancer data
SNP
Assembly
4.5 years ago by
Gene_MMP8
▴ 240
1
vote
2
replies
1.0k
views
Machine learning using microarray data
RNA-Seq
machinelearning
updated 4.5 years ago by
Charles Warden
8.2k • written 4.5 years ago by
Gene_MMP8
▴ 240
5
votes
1
reply
1.4k
views
Machine learning using microarray data
RNA-Seq
R
updated 4.6 years ago by
dsull
★ 6.0k • written 4.6 years ago by
Gene_MMP8
▴ 240
0
votes
1
reply
725
views
Default strand of mutations
genome
4.6 years ago by
Gene_MMP8
▴ 240
3
votes
1
reply
684
views
Distribution of mutations in different parts of the genome
genome
updated 4.7 years ago by
venu
7.1k • written 4.7 years ago by
Gene_MMP8
▴ 240
3
votes
4
replies
1.4k
views
Problems downloading MuSiC
software error
MuSiC
written 5.8 years ago by
Gene_MMP8
▴ 240
1
vote
1
reply
879
views
Strand information for reference genome
sequencing
Assembly
updated 4.7 years ago by
WouterDeCoster
47k • written 4.7 years ago by
Gene_MMP8
▴ 240
8
votes
2
replies
3.0k
views
Confusion with fold change cutoff
R
RNA-Seq
updated 4.8 years ago by
ATpoint
82k • written 4.8 years ago by
Gene_MMP8
▴ 240
3
votes
8
replies
3.4k
views
Remove duplicate genes with lower significance in microarray data analysis
R
limma
microarray
RNA-Seq
updated 4.8 years ago by
Chirag Parsania
★ 2.0k • written 4.8 years ago by
Gene_MMP8
▴ 240
0
votes
2
replies
1.1k
views
MIcroarray data analysis using limma
R
limma
software error
4.8 years ago by
Gene_MMP8
▴ 240
0
votes
0
replies
566
views
Control-disease pair study design
R
4.8 years ago by
Gene_MMP8
▴ 240
4
votes
6
replies
1.1k
views
Number of driver mutation required to call a gene driver
cancer
drivermutation
updated 4.8 years ago by
Kevin Blighe
88k • written 4.8 years ago by
Gene_MMP8
▴ 240
1
vote
2
replies
1.2k
views
Drug targets for hub genes
RNA-Seq
R
4.8 years ago by
Gene_MMP8
▴ 240
5
votes
3
replies
975
views
PCA-based clustering gene expression data
RNA-Seq
R
updated 4.8 years ago by
Kevin Blighe
88k • written 4.8 years ago by
Gene_MMP8
▴ 240
3
votes
8
replies
1.2k
views
Driver mutation detection benchamrk
drivermutation
benchmarking
updated 4.9 years ago by
Charles Warden
8.2k • written 4.9 years ago by
Gene_MMP8
▴ 240
5
votes
5
replies
11k
views
How to plot gene expression heatmap based on groups in R
RNA-Seq
R
4.9 years ago by
Gene_MMP8
▴ 240
0
votes
2
replies
1.8k
views
Error while trying ANNOVAR
annovar
4.9 years ago by
Gene_MMP8
▴ 240
4
votes
4
replies
1.2k
views
Wrong results in differential gene expression analysis
RNA-Seq
updated 11 months ago by
Ram
43k • written 4.9 years ago by
Gene_MMP8
▴ 240
107 results • Page
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