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Comment: C: Is it ok to use genotype replicates for association studies?
6.2 years ago by rimgubaev ▴ 340
1
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3
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1.2k
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Is it ok to use genotype replicates for association studies?
GWAS permutation test TASSEL
6.2 years ago by rimgubaev ▴ 340
0
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1
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1.5k
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Comment: C: How to make association studies using haplotype (LD) blocks instead of SNPs?
6.2 years ago by rimgubaev ▴ 340
2
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3
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1.5k
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How to make association studies using haplotype (LD) blocks instead of SNPs?
LD SNPs Haplotype GWAS
6.2 years ago by rimgubaev ▴ 340
2
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0
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1.6k
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Which test is applied in order to generate p-values in TASSEL when using Mixed Linear Model?
TASSEL GWAS statistical test
updated 6.3 years ago by 20 • written 6.4 years ago by ▴ 340
4
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1
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4.6k
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How to interpret slash (/) and vertical pipe (|) in GATK's vcf output?
GATK VCF formatting
updated 6.3 years ago by 35k • written 6.3 years ago by ▴ 340
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0
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1.2k
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Has anyone dealt with "Specified element is out of bounds" error produced by TASSEL?
GWAS TASSEL MLM Mixed linear model
6.3 years ago by rimgubaev ▴ 340
0
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1
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5.1k
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Comment: A: Convert RefseqID to EntrezID
6.4 years ago by rimgubaev ▴ 340
1
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1
reply
2.3k
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Which R packages are fit for calculating distances and make phylogenetic trees from VCF files?
VCF RNA-Seq Phylogeny populational genetics trees
6.4 years ago by rimgubaev ▴ 340
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0
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1.0k
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Can I build a phylgenetic tree using SNPs obtained by differen techniques?
GBS Population genetics array SNP
6.4 years ago by rimgubaev ▴ 340
0
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1
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4.1k
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Comment: C: Why switch negative values in kinship matrix to zeros?
6.4 years ago by rimgubaev ▴ 340
2
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3
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4.1k
views
Why switch negative values in kinship matrix to zeros?
kinship population genetics TASSEL SPAGEDI
updated 6.4 years ago by 10k • written 6.4 years ago by ▴ 340
18
votes
7
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2.9k
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How to merge multiple fastq file using table?
fastq cat bash
6.4 years ago by rimgubaev ▴ 340
1
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0
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2.9k
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Comment: C: How to merge multiple fastq file using table?
6.4 years ago by rimgubaev ▴ 340
1
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0
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5.0k
views
Answer: A: How to work with fasta files and make phylogenetics in R?
6.4 years ago by rimgubaev ▴ 340
1
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5
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5.0k
views
How to work with fasta files and make phylogenetics in R?
populational genetics R ape phangorn VCF
6.4 years ago by rimgubaev ▴ 340
0
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0
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5.0k
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Comment: C: How to work with fasta files and make phylogenetics in R?
6.4 years ago by rimgubaev ▴ 340
0
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1
reply
5.0k
views
Comment: C: How to work with fasta files and make phylogenetics in R?
6.4 years ago by rimgubaev ▴ 340
0
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0
replies
1.1k
views
Homozygous and heterozygous variants in Tassel5 output, what are they?
tassel SNP
6.5 years ago by rimgubaev ▴ 340
0
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0
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4.9k
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Comment: C: How to build a phylogenetic tree using fasta obtained from VCF file?
6.5 years ago by rimgubaev ▴ 340
0
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0
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4.9k
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Comment: C: How to build a phylogenetic tree using fasta obtained from VCF file?
6.5 years ago by rimgubaev ▴ 340
0
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1
reply
4.9k
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Comment: C: How to build a phylogenetic tree using fasta obtained from VCF file?
6.5 years ago by rimgubaev ▴ 340
2
votes
7
replies
4.9k
views
How to build a phylogenetic tree using fasta obtained from VCF file?
Population genetics VCF MEGA
updated 4.4 years ago by ▴ 60 • written 6.5 years ago by ▴ 340
1
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0
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1.4k
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Comment: C: Structure produces no result
6.5 years ago by rimgubaev ▴ 340
3
votes
0
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8.5k
views
Answer: A: STRUCTURE software file format
6.5 years ago by rimgubaev ▴ 340
0
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1
reply
1.4k
views
Comment: C: Structure produces no result
6.5 years ago by rimgubaev ▴ 340
1
vote
3
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1.4k
views
Structure produces no result
Structure Population genetics
6.5 years ago by rimgubaev ▴ 340
0
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0
replies
5.9k
views
Comment: C: VariantFiltration warning "undefined variable"
6.5 years ago by rimgubaev ▴ 340
0
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0
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3.9k
views
Comment: C: How to make interval list for GBS sequencing?
6.5 years ago by rimgubaev ▴ 340
1
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1
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3.9k
views
Answer: A: How to make interval list for GBS sequencing?
6.5 years ago by rimgubaev ▴ 340
3
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8
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3.9k
views
How to make interval list for GBS sequencing?
GBS GATK4
6.5 years ago by rimgubaev ▴ 340
0
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1
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3.9k
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Comment: C: How to make interval list for GBS sequencing?
6.5 years ago by rimgubaev ▴ 340
0
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0
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3.9k
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Comment: C: How to make interval list for GBS sequencing?
6.5 years ago by rimgubaev ▴ 340
0
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0
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27k
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Comment: C: Building Snpeff Database
6.6 years ago by rimgubaev ▴ 340
0
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1
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27k
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Comment: C: Building Snpeff Database
6.6 years ago by rimgubaev ▴ 340
0
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0
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2.9k
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Answer: A: GBS paired reads splits it into several smaller files based on barcode matching
6.6 years ago by rimgubaev ▴ 340
1
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0
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2.9k
views
Answer: A: GBS paired reads splits it into several smaller files based on barcode matching
6.6 years ago by rimgubaev ▴ 340
0
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1
reply
2.6k
views
What does LnP(D) per clusters K plot means?
GWAS Population genetics
6.6 years ago by rimgubaev ▴ 340
9
votes
3
replies
5.3k
views
Is it possible to make a PCA plot for samples using TPM exprssion values in R?
RNA-Seq PCA TPM
updated 7.0 years ago by 6.6k • written 7.0 years ago by ▴ 340
10
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7
replies
10k
views
Why volcano plot has no points in the middle of plot?
RNA-Seq Volcano plot
updated 7.1 years ago by 48k • written 7.1 years ago by ▴ 340
0
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0
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2.2k
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Comment: C: What is wrong with NCBI's gff file?
7.1 years ago by rimgubaev ▴ 340
7
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3
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2.2k
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What is wrong with NCBI's gff file?
GFF
7.1 years ago by rimgubaev ▴ 340
3
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0
replies
1.7k
views
Answer: A: Are there some ways to extract information in tabular format from text with regu
7.1 years ago by rimgubaev ▴ 340
3
votes
2
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1.7k
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Are there some ways to extract information in tabular format from text with regular pattern?
text mining promoter analysis NsiteM
7.1 years ago by rimgubaev ▴ 340
5
votes
0
replies
5.9k
views
Answer: A: How to extract all promoter regions in multi-fasta format from genome using GFF?
7.1 years ago by rimgubaev ▴ 340
7
votes
4
replies
5.9k
views
How to extract all promoter regions in multi-fasta format from genome using GFF?
promoter genome gff fasta
7.2 years ago by rimgubaev ▴ 340
0
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0
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5.1k
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Comment: C: Could somebody suggest free pathway visualization tool for omics data from plant
7.2 years ago by rimgubaev ▴ 340
0
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0
replies
1.5k
views
Comment: C: How to search cis-regulatory elemens using promoter multifasta from non-model pl
7.2 years ago by rimgubaev ▴ 340
0
votes
2
replies
1.5k
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How to search cis-regulatory elemens using promoter multifasta from non-model plant?
cis-regulatory element multifasta non-model plant
7.2 years ago by rimgubaev ▴ 340
0
votes
0
replies
5.1k
views
Comment: C: Could somebody suggest free pathway visualization tool for omics data from plant
7.3 years ago by rimgubaev ▴ 340
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