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2
votes
6
replies
2.2k
views
IMPUTE2 minimal number of SNPs per chunk
impute gwas
updated 4.4 years ago by 4.8k • written 4.4 years ago by ▴ 420
0
votes
1
reply
973
views
IMPUTE2 limit to only one population of 1000G Reference
GWAS impute 1000g
updated 4.4 years ago by 4.8k • written 4.4 years ago by ▴ 420
0
votes
0
replies
935
views
maxT permutation in plink
plink gwas
4.4 years ago by nhaus ▴ 420
0
votes
0
replies
1.5k
views
Comment: Comment: Why are there nucleotides in the reference genome which are also minor alleles i
4.4 years ago by nhaus ▴ 420
2
votes
4
replies
1.5k
views
Why are there nucleotides in the reference genome which are also minor alleles in the 1000 genomes project
reference genotype minor allele
updated 4.4 years ago by 48k • written 4.4 years ago by ▴ 420
1
vote
1
reply
1.5k
views
What happens to the genotype field in a g.vcf after CombineGVCFs
GT GATK CombineGVCFs genotype
updated 4.4 years ago by ▴ 20 • written 4.5 years ago by ▴ 420
0
votes
1
reply
2.8k
views
Comment: Comment: Ambiguous SNPs
4.4 years ago by nhaus ▴ 420
2
votes
3
replies
2.8k
views
Ambiguous SNPs
SNPs
updated 4.4 years ago by 24k • written 4.4 years ago by ▴ 420
0
votes
0
replies
671
views
Illumina Omni2.5 genotyping get actual genotypes.
genotyping omni illumina
4.5 years ago by nhaus ▴ 420
0
votes
0
replies
2.1k
views
Comment: Comment: SHAPEIT v4 modify keep QUAL FORMAT and INFO field
4.5 years ago by nhaus ▴ 420
2
votes
5
replies
2.1k
views
SHAPEIT v4 modify keep QUAL FORMAT and INFO field
shapeit phasing haplotype
4.5 years ago by nhaus ▴ 420
0
votes
1
reply
5.2k
views
Comment: Comment: VEP is very slow. Fork doesnt seem to work
4.5 years ago by nhaus ▴ 420
1
vote
3
replies
2.2k
views
GATK ApplyVQSR filtering doesnt work
gatk variant calling germline
4.5 years ago by nhaus ▴ 420
1
vote
0
replies
2.2k
views
Answer: Answer: GATK ApplyVQSR filtering doesnt work
4.5 years ago by nhaus ▴ 420
0
votes
0
replies
2.2k
views
Comment: Comment: GATK ApplyVQSR filtering doesnt work
4.5 years ago by nhaus ▴ 420
0
votes
0
replies
2.7k
views
Comment: Comment: Liftover vcf file from hs37d5 assembly to b37 assembly
4.5 years ago by nhaus ▴ 420
0
votes
1
reply
2.7k
views
Comment: Comment: Liftover vcf file from hs37d5 assembly to b37 assembly
4.5 years ago by nhaus ▴ 420
1
vote
5
replies
2.7k
views
Liftover vcf file from hs37d5 assembly to b37 assembly
vcf liftover assembly
updated 4.2 years ago by ▴ 110 • written 4.5 years ago by ▴ 420
1
vote
0
replies
2.0k
views
Comment: Comment: High confident germline SNP and INDELS for VQSR for reference genome GRCh37
4.5 years ago by nhaus ▴ 420
5
votes
2
replies
2.0k
views
High confident germline SNP and INDELS for VQSR for reference genome GRCh37
INDEL SNP 1000g GRCh37
4.5 years ago by nhaus ▴ 420
0
votes
1
reply
1.1k
views
Predicting Drug responds from somatic mutations
prediction somatic responds drug
updated 4.5 years ago by ▴ 590 • written 4.5 years ago by ▴ 420
1
vote
4
replies
2.3k
views
Create Mutational signature plot from vcf file.
R python mutational
4.6 years ago by nhaus ▴ 420
0
votes
0
replies
2.3k
views
Answer: Answer: Create Mutational signature plot from vcf file.
4.6 years ago by nhaus ▴ 420
0
votes
0
replies
2.3k
views
Comment: Comment: Create Mutational signature plot from vcf file.
4.6 years ago by nhaus ▴ 420
0
votes
1
reply
1.2k
views
Comment: C: conceptual question about paired end sequencing
4.6 years ago by nhaus ▴ 420
3
votes
5
replies
1.2k
views
conceptual question about paired end sequencing
sequencing illumina
updated 4.7 years ago by 45k • written 4.7 years ago by ▴ 420
3
votes
5
replies
5.2k
views
VEP is very slow. Fork doesnt seem to work
vep annotation
4.5 years ago by nhaus ▴ 420
0
votes
1
reply
1.2k
views
Experience with BaseRecalibratorSpark and ApplyBQSRSpark
gatk somatic mutations snp
updated 4.7 years ago by 8.1k • written 4.7 years ago by ▴ 420
0
votes
0
replies
1.1k
views
Panel of normals for Mutect2 GRCh37
gatk broad mutect2
4.7 years ago by nhaus ▴ 420
1
vote
5
replies
1.5k
views
biomaRt external_gene_name same entry multiple times when mapping to homolog mouse gene
ensembl mapping homology
4.8 years ago by nhaus ▴ 420
0
votes
0
replies
1.5k
views
Comment: C: biomaRt external_gene_name same entry multiple times when mapping to homolog mou
4.8 years ago by nhaus ▴ 420
0
votes
0
replies
594
views
chi-square test to identify significantly mutated genes
genome sequencing
4.8 years ago by nhaus ▴ 420
0
votes
0
replies
2.2k
views
Comment: C: Duplicated genes in overrepresentation analysis (ORA)
4.8 years ago by nhaus ▴ 420
0
votes
1
reply
2.2k
views
Comment: C: Duplicated genes in overrepresentation analysis (ORA)
4.8 years ago by nhaus ▴ 420
0
votes
4
replies
2.2k
views
Duplicated genes in overrepresentation analysis (ORA)
ORA GSEA
updated 4.8 years ago by ▴ 210 • written 4.8 years ago by ▴ 420
0
votes
0
replies
629
views
Proper way of comparing list of mutated genes
gene GSEA
4.8 years ago by nhaus ▴ 420
0
votes
1
reply
1.7k
views
Comment: C: Count, LT, PH, PT Column in Functional Annotation Chart of DAVID
4.8 years ago by nhaus ▴ 420
3
votes
3
replies
1.7k
views
Count, LT, PH, PT Column in Functional Annotation Chart of DAVID
DAVID GSEA
updated 4.8 years ago by 10k • written 4.8 years ago by ▴ 420
0
votes
0
replies
884
views
versioned transcripts with SnpEff GRCh37
SnpEff annotation
4.9 years ago by nhaus ▴ 420
0
votes
0
replies
1.2k
views
Comment: C: GT 0/0 in VCF file
4.9 years ago by nhaus ▴ 420
2
votes
2
replies
1.2k
views
GT 0/0 in VCF file
genome
4.9 years ago by nhaus ▴ 420
1
vote
0
replies
31k
views
Answer: A: Extract Base Based On Position From Bam File
5.0 years ago by nhaus ▴ 420
0
votes
0
replies
955
views
Comment: C: Using StringTie with CAGE-seq data
5.2 years ago by nhaus ▴ 420
0
votes
3
replies
955
views
Using StringTie with CAGE-seq data
StringTie
5.2 years ago by nhaus ▴ 420
0
votes
5
replies
4.1k
views
Merging BAM vs concatenate FASTQ
sequencing genome
5.2 years ago by nhaus ▴ 420
0
votes
1
reply
5.9k
views
Comment: C: Questions about reference genome and alignment
5.2 years ago by nhaus ▴ 420
0
votes
1
reply
5.9k
views
Comment: C: Questions about reference genome and alignment
5.2 years ago by nhaus ▴ 420
4
votes
9
replies
5.9k
views
Questions about reference genome and alignment
genome alignment assembly
updated 5.2 years ago by 13k • written 5.2 years ago by ▴ 420
1
vote
1
reply
1.2k
views
How to download BAM file from VM
bam VM
updated 2.6 years ago by 45k • written 5.4 years ago by ▴ 420
0
votes
0
replies
838
views
Find out genome version given fasta file
genome assembly
5.4 years ago by nhaus ▴ 420
111 results • Page 2 of 3
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