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0
votes
2
replies
1.3k
views
Using VEP nextflow to add annotation to VCF
wgs vep annotation
2.5 years ago by halo22 ▴ 300
0
votes
0
replies
352
views
WGS based variant analysis for biomarkers
WGS sequencing statistics
2.6 years ago by halo22 ▴ 300
3
votes
4
replies
3.8k
views
Reading methylation without IDAT files downloaded from GEO
Methylation Gene expression omnibus GEO minfi
updated 3.4 years ago by ▴ 10 • written 6.3 years ago by ▴ 300
1
vote
2
replies
1.9k
views
Why is mapper.pl from mirdeep2 producing an empty mapping file?
mirna ngs next-gen
updated 3.8 years ago by ▴ 10 • written 4.1 years ago by ▴ 300
0
votes
2
replies
864
views
Power analysis to determine sample size for a single-cell sequencing study
sequencing single-cell
3.8 years ago by halo22 ▴ 300
1
vote
1
reply
696
views
Do read group names have effect on marking duplicates using GATK?
Picard NGS WGS
4.0 years ago by halo22 ▴ 300
4
votes
3
replies
1.8k
views
Adding read group (@RG) information when there are multiple ID's.
next-gen alignment
updated 4.1 years ago by 47k • written 4.1 years ago by ▴ 300
0
votes
1
reply
1.6k
views
Ancestry prediction for non-related samples from a VCF file
next-gen sequencing peddy ancestry
updated 4.1 years ago by • 0 • written 4.4 years ago by ▴ 300
0
votes
0
replies
1.7k
views
Trimmomatic(0.39) java error [Exception in thread "main" java.lang.ArrayIndexOutOfBoundsException: 1]
sequence
4.2 years ago by halo22 ▴ 300
5
votes
3
replies
6.4k
views
How To Parse Data From An Owl File
perl ontology
updated 4.4 years ago by 20 • written 12.8 years ago by ▴ 300
0
votes
1
reply
1.0k
views
Regression Analysis between RNA-seq data and expression measured from ELISA
RNA-Seq
4.4 years ago by halo22 ▴ 300
2
votes
2
replies
1.3k
views
DESeq2 Anova type comparison and Pvalues.
deseq2 RNA-Seq rna
4.6 years ago by halo22 ▴ 300
4
votes
3
replies
3.2k
views
Integrating WGS and RNA-seq data
RNA-Seq genome next-gen
updated 4.9 years ago by • 0 • written 8.5 years ago by ▴ 300
5
votes
5
replies
5.4k
views
Marker genes for different cell types
singlecell RNA RNA-Seq
updated 4.9 years ago by ▴ 210 • written 7.5 years ago by ▴ 300
1
vote
5
replies
1.4k
views
Tool to check what alternate allele is dominant across samples per line of the VCF file.
next-gen WGS
updated 4.9 years ago by 11k • written 5.0 years ago by ▴ 300
0
votes
1
reply
1.3k
views
GC overhead error [java.lang.OutOfMemoryError] while running snpEFF version 4.1
next-gen snpeff
5.3 years ago by halo22 ▴ 300
1
vote
2
replies
1.9k
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 5.3 years ago by 20 • written 5.8 years ago by ▴ 300
0
votes
0
replies
1.4k
views
Analyzing data produced by the UMI based SCRB-seq (Soumillon et al. 2014) protocol.
RNA-Seq next-gen
updated 6.4 years ago by 20 • written 6.5 years ago by ▴ 300
2
votes
2
replies
1.0k
views
Turning transcript estimate to gene level estimates
rna-seq next-gen
updated 6.4 years ago by 105k • written 6.4 years ago by ▴ 300
0
votes
1
reply
1.4k
views
Generating a gene expression matrix from Picard *duplicates_marked.bam file
rna-seq
6.5 years ago by halo22 ▴ 300
0
votes
1
reply
2.1k
views
10X based Single cell sequencing for comparing two different disease states
single cell RNA-Seq
updated 6.5 years ago by 13k • written 6.5 years ago by ▴ 300
4
votes
6
replies
6.9k
views
Enrichr analysis using ranked gene list
pathway analysis genome RNA enrichr
updated 7.0 years ago by ▴ 10 • written 7.6 years ago by ▴ 300
1
vote
1
reply
2.1k
views
Appropriate DESeq2 design for multi-factor comparison within group?
RNA-Seq DESeq2
updated 7.2 years ago by 14k • written 7.2 years ago by ▴ 300
2
votes
1
reply
3.3k
views
Time series comparison with DESEQ2
RNA RNA-Seq next-gen
updated 7.3 years ago by 20 • written 7.4 years ago by ▴ 300
1
vote
0
replies
2.1k
views
Comparing genes expression across samples in single cell RNA sequencing.
RNA-Seq Seurat scRNA
7.3 years ago by halo22 ▴ 300
0
votes
0
replies
1.4k
views
When is centering and scaling needed before doing hierarchical clustering?
clustering statistics machine learning
7.4 years ago by halo22 ▴ 300
1
vote
1
reply
1.9k
views
DeSeq2 for time point analysis? And what is the best way to handle technical replicates
RNA-Seq Desq2
updated 7.5 years ago by 105k • written 7.5 years ago by ▴ 300
4
votes
4
replies
1.9k
views
How to use the qvalue function for multiple testing?
snp R RNA-Seq
updated 7.6 years ago by 11k • written 7.6 years ago by ▴ 300
0
votes
6
replies
2.2k
views
Pathway analysis for proteins without a ranking criteria
genome RNA-Seq pathway analysis
updated 7.6 years ago by 7.6k • written 7.6 years ago by ▴ 300
9
votes
5
replies
1.9k
views
Node requirement on a cluster for bioinformatics analysis
alignment genome next-gen
updated 7.7 years ago by 20 • written 8.6 years ago by ▴ 300
0
votes
1
reply
1.0k
views
Updated list of genes related to vitamin D and obesity?
next-gen RNA-Seq genome
updated 7.7 years ago by ▴ 360 • written 7.7 years ago by ▴ 300
0
votes
2
replies
2.5k
views
Filtering RNA-seq expression matrix?
RNA-Seq sequencing rNA
updated 7.8 years ago by ★ 1.2k • written 7.8 years ago by ▴ 300
6
votes
2
replies
2.2k
views
Analysis of sc-RNA data
RNA-Seq sequencing
updated 7.9 years ago by ▴ 50 • written 8.0 years ago by ▴ 300
0
votes
2
replies
1.7k
views
Pathway analysis for significant proteins
protein pathwayAnalysis genome
updated 7.9 years ago by ★ 1.9k • written 7.9 years ago by ▴ 300
1
vote
1
reply
1.5k
views
Specific questions about pathway analysis
next-gen genome pathway gene sequence
updated 8.0 years ago by ▴ 190 • written 8.0 years ago by ▴ 300
3
votes
1
reply
3.4k
views
Single cell RNA sequencing with Fluidigm vs Drop-seq?
RNA-Seq sequencing next-gen
updated 8.0 years ago by ★ 2.9k • written 8.5 years ago by ▴ 300
0
votes
0
replies
2.2k
views
Error while using ChAMP
methylation 450k bioconductor R
8.2 years ago by halo22 ▴ 300
2
votes
5
replies
6.2k
views
Help with Minfi for methylation analysis.
snp sequencing methylation 450k
updated 8.2 years ago by 13k • written 8.2 years ago by ▴ 300
4
votes
7
replies
2.2k
views
Allele specific analysis
RNA-Seq next-gen alignment
updated 8.3 years ago by ★ 1.2k • written 8.5 years ago by ▴ 300
0
votes
0
replies
2.1k
views
Human 450K methylation data analysis for DMP
R genome snp next-gen sequencing
8.3 years ago by halo22 ▴ 300
5
votes
1
reply
1.7k
views
Fundamental question about biological replicates and cuffdiff
RNA-Seq genome r
updated 8.4 years ago by 105k • written 8.4 years ago by ▴ 300
0
votes
0
replies
1.1k
views
Experimental design that uses sequence data from WGS, RNA and Methyl-seq
RNA-Seq genome sequencing
8.5 years ago by halo22 ▴ 300
2
votes
4
replies
9.0k
views
What is Digital Gene Expression?
RNA-Seq sequencing next-gen
updated 8.6 years ago by 8.4k • written 8.6 years ago by ▴ 300
43 results • Page 1 of 1
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