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Comment: Comment: Using VEP nextflow to add annotation to VCF
22 months ago by halo22 ▴ 300
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2
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1.0k
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Using VEP nextflow to add annotation to VCF
wgs vep annotation
22 months ago by halo22 ▴ 300
0
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0
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285
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WGS based variant analysis for biomarkers
WGS sequencing statistics
23 months ago by halo22 ▴ 300
3
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4
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3.5k
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Reading methylation without IDAT files downloaded from GEO
Methylation Gene expression omnibus GEO minfi
updated 2.7 years ago by ▴ 10 • written 5.6 years ago by ▴ 300
1
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2
replies
1.6k
views
Why is mapper.pl from mirdeep2 producing an empty mapping file?
mirna ngs next-gen
updated 3.1 years ago by ▴ 10 • written 3.4 years ago by ▴ 300
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0
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765
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Comment: Comment: Power analysis to determine sample size for a single-cell sequencing study
3.1 years ago by halo22 ▴ 300
0
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2
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765
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Power analysis to determine sample size for a single-cell sequencing study
sequencing single-cell
3.1 years ago by halo22 ▴ 300
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0
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2.3k
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Comment: C: Mixed Linear Model and GWAS study
3.2 years ago by halo22 ▴ 300
0
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1
reply
566
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Comment: C: Identifiying SNP frequencies for very specific subpopulations on dbSNP
3.2 years ago by halo22 ▴ 300
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0
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1.4k
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Comment: C: chi squared assesment of gene expression and batch effect
3.2 years ago by halo22 ▴ 300
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2
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840
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Comment: A: Is it possible to get SARS-CoV-2 sequences from https://outbreak.info/?
updated 3.2 years ago by 43k • written 3.2 years ago by ▴ 300
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1
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1.4k
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Answer: A: chi squared assesment of gene expression and batch effect
3.2 years ago by halo22 ▴ 300
1
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1
reply
1.9k
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Comment: C: genes underlying gseGO categories
3.2 years ago by halo22 ▴ 300
2
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1
reply
1.9k
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Answer: A: genes underlying gseGO categories
3.2 years ago by halo22 ▴ 300
2
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0
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6.0k
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Comment: C: Differential protein/biomarker expression using limma: is that possible?
3.2 years ago by halo22 ▴ 300
0
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0
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673
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Answer: A: Is mutation activating or inactivating?
3.2 years ago by halo22 ▴ 300
0
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1
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6.0k
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Answer: A: Differential protein/biomarker expression using limma: is that possible?
3.2 years ago by halo22 ▴ 300
0
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0
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710
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Comment: A: The problems when i map to genome by mapper.pl in miRDeep2
3.2 years ago by halo22 ▴ 300
0
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0
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1.7k
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Comment: C: ConsensusClusterPlus: How to extract most contributing features for each cluster
3.2 years ago by halo22 ▴ 300
0
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0
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2.1k
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Answer: A: Making plots for enrichment and KEGG results
3.2 years ago by halo22 ▴ 300
0
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1
reply
685
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Answer: A: Linear regression on genotype data
3.2 years ago by halo22 ▴ 300
1
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1
reply
1.2k
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Answer: A: clusterProfiler Results not showing
3.2 years ago by halo22 ▴ 300
1
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1
reply
623
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Do read group names have effect on marking duplicates using GATK?
Picard NGS WGS
3.3 years ago by halo22 ▴ 300
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1
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1.5k
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Comment: C: Adding read group (@RG) information when there are multiple ID's.
3.3 years ago by halo22 ▴ 300
4
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3
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1.5k
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Adding read group (@RG) information when there are multiple ID's.
next-gen alignment
updated 3.4 years ago by 47k • written 3.4 years ago by ▴ 300
0
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1
reply
1.4k
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Ancestry prediction for non-related samples from a VCF file
next-gen sequencing peddy ancestry
updated 3.4 years ago by • 0 • written 3.8 years ago by ▴ 300
0
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0
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1.6k
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Trimmomatic(0.39) java error [Exception in thread "main" java.lang.ArrayIndexOutOfBoundsException: 1]
sequence
3.6 years ago by halo22 ▴ 300
1
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0
replies
3.4k
views
Answer: A: RNAseq Variance calculation
3.7 years ago by halo22 ▴ 300
5
votes
3
replies
6.1k
views
How To Parse Data From An Owl File
perl ontology
updated 3.8 years ago by 20 • written 12.2 years ago by ▴ 300
0
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1
reply
913
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Regression Analysis between RNA-seq data and expression measured from ELISA
RNA-Seq
3.8 years ago by halo22 ▴ 300
0
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0
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1.1k
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Comment: C: DESeq2 Anova type comparison and Pvalues.
3.9 years ago by halo22 ▴ 300
2
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2
replies
1.1k
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DESeq2 Anova type comparison and Pvalues.
deseq2 RNA-Seq rna
3.9 years ago by halo22 ▴ 300
4
votes
3
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3.1k
views
Integrating WGS and RNA-seq data
RNA-Seq genome next-gen
updated 4.2 years ago by • 0 • written 7.8 years ago by ▴ 300
5
votes
5
replies
5.1k
views
Marker genes for different cell types
singlecell RNA RNA-Seq
updated 4.2 years ago by ▴ 210 • written 6.9 years ago by ▴ 300
1
vote
5
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1.2k
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Tool to check what alternate allele is dominant across samples per line of the VCF file.
next-gen WGS
updated 4.3 years ago by 10k • written 4.3 years ago by ▴ 300
0
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0
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1.2k
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Comment: C: Tool to check what alternate allele is dominant across samples per line of the V
4.3 years ago by halo22 ▴ 300
0
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1
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1.2k
views
GC overhead error [java.lang.OutOfMemoryError] while running snpEFF version 4.1
next-gen snpeff
4.6 years ago by halo22 ▴ 300
1
vote
2
replies
1.7k
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 4.6 years ago by 20 • written 5.1 years ago by ▴ 300
0
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0
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3.5k
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Comment: C: Reading methylation without IDAT files downloaded from GEO
5.6 years ago by halo22 ▴ 300
0
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0
replies
1.3k
views
Analyzing data produced by the UMI based SCRB-seq (Soumillon et al. 2014) protocol.
RNA-Seq next-gen
updated 5.7 years ago by 20 • written 5.8 years ago by ▴ 300
2
votes
2
replies
906
views
Turning transcript estimate to gene level estimates
rna-seq next-gen
updated 5.8 years ago by 104k • written 5.8 years ago by ▴ 300
0
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1
reply
1.4k
views
Generating a gene expression matrix from Picard *duplicates_marked.bam file
rna-seq
5.8 years ago by halo22 ▴ 300
0
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1
reply
2.0k
views
10X based Single cell sequencing for comparing two different disease states
single cell RNA-Seq
updated 5.9 years ago by 13k • written 5.9 years ago by ▴ 300
4
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6
replies
6.4k
views
Enrichr analysis using ranked gene list
pathway analysis genome RNA enrichr
updated 6.3 years ago by ▴ 10 • written 6.9 years ago by ▴ 300
1
vote
1
reply
2.0k
views
Appropriate DESeq2 design for multi-factor comparison within group?
RNA-Seq DESeq2
updated 6.5 years ago by 14k • written 6.5 years ago by ▴ 300
0
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0
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6.4k
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Comment: C: Enrichr analysis using ranked gene list
6.6 years ago by halo22 ▴ 300
0
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1
reply
6.4k
views
Comment: C: Enrichr analysis using ranked gene list
6.6 years ago by halo22 ▴ 300
2
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1
reply
3.2k
views
Time series comparison with DESEQ2
RNA RNA-Seq next-gen
updated 6.6 years ago by 20 • written 6.8 years ago by ▴ 300
0
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3
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13k
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Answer: A: Finding Variable Genes in Seurat, scRNA-seq
6.7 years ago by halo22 ▴ 300
1
vote
1
reply
11k
views
Answer: A: Making a 3d tSNE Plot in Seurat for scRNA-seq
6.7 years ago by halo22 ▴ 300
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