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0
votes
0
replies
508
views
Comment:
Comment: Using VEP nextflow to add annotation to VCF
7 months ago by
halo22
▴ 290
0
votes
2
replies
508
views
Using VEP nextflow to add annotation to VCF
wgs
vep
annotation
7 months ago by
halo22
▴ 290
0
votes
0
replies
182
views
WGS based variant analysis for biomarkers
WGS
sequencing
statistics
8 months ago by
halo22
▴ 290
3
votes
4
replies
2.9k
views
Reading methylation without IDAT files downloaded from GEO
Methylation
Gene expression omnibus
GEO
minfi
updated 18 months ago by
pierrefransquet
▴ 10 • written 4.4 years ago by
halo22
▴ 290
1
vote
2
replies
1.2k
views
Why is mapper.pl from mirdeep2 producing an empty mapping file?
mirna
ngs
next-gen
updated 23 months ago by
Yuquan
▴ 10 • written 2.3 years ago by
halo22
▴ 290
0
votes
0
replies
575
views
Comment:
Comment: Power analysis to determine sample size for a single-cell sequencing study
24 months ago by
halo22
▴ 290
0
votes
2
replies
575
views
Power analysis to determine sample size for a single-cell sequencing study
sequencing
single-cell
24 months ago by
halo22
▴ 290
0
votes
0
replies
1.6k
views
Comment:
C: Mixed Linear Model and GWAS study
2.0 years ago by
halo22
▴ 290
0
votes
1
reply
391
views
Comment:
C: Identifiying SNP frequencies for very specific subpopulations on dbSNP
2.0 years ago by
halo22
▴ 290
0
votes
0
replies
865
views
Comment:
C: chi squared assesment of gene expression and batch effect
2.0 years ago by
halo22
▴ 290
0
votes
2
replies
528
views
Comment:
A: Is it possible to get SARS-CoV-2 sequences from https://outbreak.info/?
updated 2.0 years ago by
Ram
38k • written 2.0 years ago by
halo22
▴ 290
0
votes
1
reply
865
views
Answer:
A: chi squared assesment of gene expression and batch effect
2.0 years ago by
halo22
▴ 290
1
vote
1
reply
1.2k
views
Comment:
C: genes underlying gseGO categories
2.0 years ago by
halo22
▴ 290
2
votes
1
reply
1.2k
views
Answer:
A: genes underlying gseGO categories
2.0 years ago by
halo22
▴ 290
2
votes
0
replies
3.6k
views
Comment:
C: Differential protein/biomarker expression using limma: is that possible?
2.0 years ago by
halo22
▴ 290
0
votes
0
replies
532
views
Answer:
A: Is mutation activating or inactivating?
2.0 years ago by
halo22
▴ 290
0
votes
1
reply
3.6k
views
Answer:
A: Differential protein/biomarker expression using limma: is that possible?
2.0 years ago by
halo22
▴ 290
0
votes
0
replies
471
views
Comment:
A: The problems when i map to genome by mapper.pl in miRDeep2
2.0 years ago by
halo22
▴ 290
0
votes
0
replies
850
views
Comment:
C: ConsensusClusterPlus: How to extract most contributing features for each cluster
2.0 years ago by
halo22
▴ 290
0
votes
0
replies
1.3k
views
Answer:
A: Making plots for enrichment and KEGG results
2.0 years ago by
halo22
▴ 290
0
votes
1
reply
469
views
Answer:
A: Linear regression on genotype data
2.0 years ago by
halo22
▴ 290
1
vote
1
reply
789
views
Answer:
A: clusterProfiler Results not showing
2.0 years ago by
halo22
▴ 290
1
vote
1
reply
468
views
Do read group names have effect on marking duplicates using GATK?
Picard
NGS
WGS
2.2 years ago by
halo22
▴ 290
0
votes
1
reply
972
views
Comment:
C: Adding read group (@RG) information when there are multiple ID's.
2.2 years ago by
halo22
▴ 290
4
votes
3
replies
972
views
Adding read group (@RG) information when there are multiple ID's.
next-gen
alignment
updated 2.2 years ago by
WouterDeCoster
47k • written 2.2 years ago by
halo22
▴ 290
0
votes
1
reply
1.1k
views
Ancestry prediction for non-related samples from a VCF file
next-gen
sequencing
peddy
ancestry
updated 2.3 years ago by
rjd254
• 0 • written 2.6 years ago by
halo22
▴ 290
0
votes
0
replies
1.3k
views
Trimmomatic(0.39) java error [Exception in thread "main" java.lang.ArrayIndexOutOfBoundsException: 1]
sequence
2.4 years ago by
halo22
▴ 290
1
vote
0
replies
2.4k
views
Answer:
A: RNAseq Variance calculation
2.6 years ago by
halo22
▴ 290
5
votes
3
replies
5.7k
views
How To Parse Data From An Owl File
perl
ontology
updated 2.6 years ago by
Biostar
20 • written 11.0 years ago by
halo22
▴ 290
0
votes
1
reply
701
views
Regression Analysis between RNA-seq data and expression measured from ELISA
RNA-Seq
2.6 years ago by
halo22
▴ 290
0
votes
0
replies
819
views
Comment:
C: DESeq2 Anova type comparison and Pvalues.
2.7 years ago by
halo22
▴ 290
2
votes
2
replies
819
views
DESeq2 Anova type comparison and Pvalues.
deseq2
RNA-Seq
rna
2.7 years ago by
halo22
▴ 290
4
votes
3
replies
2.8k
views
Integrating WGS and RNA-seq data
RNA-Seq
genome
next-gen
updated 3.1 years ago by
biosys
• 0 • written 6.7 years ago by
halo22
▴ 290
4
votes
5
replies
4.6k
views
Marker genes for different cell types
singlecell
RNA
RNA-Seq
updated 3.1 years ago by
jrleary
▴ 190 • written 5.7 years ago by
halo22
▴ 290
1
vote
5
replies
873
views
Tool to check what alternate allele is dominant across samples per line of the VCF file.
next-gen
WGS
updated 3.1 years ago by
chrchang523
10.0k • written 3.2 years ago by
halo22
▴ 290
0
votes
0
replies
873
views
Comment:
C: Tool to check what alternate allele is dominant across samples per line of the V
3.1 years ago by
halo22
▴ 290
0
votes
1
reply
961
views
GC overhead error [java.lang.OutOfMemoryError] while running snpEFF version 4.1
next-gen
snpeff
3.4 years ago by
halo22
▴ 290
1
vote
2
replies
1.4k
views
How to use limma for a categorial outcome variable? Where outcome is the cohort status and predictor is gene expression.
next-gen
RNA
RNA-Seq
limma
updated 3.5 years ago by
Biostar
20 • written 4.0 years ago by
halo22
▴ 290
0
votes
0
replies
2.9k
views
Comment:
C: Reading methylation without IDAT files downloaded from GEO
4.4 years ago by
halo22
▴ 290
0
votes
0
replies
1.2k
views
Analyzing data produced by the UMI based SCRB-seq (Soumillon et al. 2014) protocol.
RNA-Seq
next-gen
updated 4.6 years ago by
Biostar
20 • written 4.6 years ago by
halo22
▴ 290
2
votes
2
replies
710
views
Turning transcript estimate to gene level estimates
rna-seq
next-gen
updated 4.6 years ago by
Devon Ryan
103k • written 4.6 years ago by
halo22
▴ 290
0
votes
1
reply
1.2k
views
Generating a gene expression matrix from Picard *duplicates_marked.bam file
rna-seq
4.6 years ago by
halo22
▴ 290
0
votes
1
reply
1.8k
views
10X based Single cell sequencing for comparing two different disease states
single cell
RNA-Seq
updated 4.7 years ago by
igor
13k • written 4.7 years ago by
halo22
▴ 290
4
votes
6
replies
5.6k
views
Enrichr analysis using ranked gene list
pathway analysis
genome
RNA
enrichr
updated 5.2 years ago by
adnbps
▴ 10 • written 5.8 years ago by
halo22
▴ 290
1
vote
1
reply
1.8k
views
Appropriate DESeq2 design for multi-factor comparison within group?
RNA-Seq
DESeq2
updated 5.4 years ago by
swbarnes2
13k • written 5.4 years ago by
halo22
▴ 290
0
votes
0
replies
5.6k
views
Comment:
C: Enrichr analysis using ranked gene list
5.5 years ago by
halo22
▴ 290
0
votes
1
reply
5.6k
views
Comment:
C: Enrichr analysis using ranked gene list
5.5 years ago by
halo22
▴ 290
2
votes
1
reply
2.9k
views
Time series comparison with DESEQ2
RNA
RNA-Seq
next-gen
updated 5.5 years ago by
Biostar
20 • written 5.6 years ago by
halo22
▴ 290
0
votes
3
replies
11k
views
Answer:
A: Finding Variable Genes in Seurat, scRNA-seq
5.5 years ago by
halo22
▴ 290
1
vote
1
reply
9.6k
views
Answer:
A: Making a 3d tSNE Plot in Seurat for scRNA-seq
5.5 years ago by
halo22
▴ 290
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