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23
votes
17
replies
29k
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10 follow
Download full list of SNPs and their coordinates in hg38
SNP hg38 SNPsnap DBsnp population genetics
updated 2.8 years ago by ▴ 180 • written 7.4 years ago by ▴ 280
7
votes
31
replies
19k
views
Scale and Center [normalized] RNA-seq expression counts for PCA ?
sequencing pca genome R RNA-Seq
updated 3.4 years ago by 45k • written 10.6 years ago by ▴ 280
24
votes
22
replies
61k
views
6 follow
Converting VCF to PLINK .bed binary fileset to check for pedigree errors with KING: How do conversion tools make the PLINK .fam file, without asking …
plink vcf fam gatk vcftools
updated 2.8 years ago by • 0 • written 7.4 years ago by ▴ 280
1
vote
1
reply
61k
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Comment: C: Converting VCF to PLINK .bed binary fileset for pedigree checking with KING: How
7.4 years ago by gaelgarcia ▴ 280
0
votes
2
replies
61k
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Comment: C: Converting VCF to PLINK .bed binary fileset: How do the different tools availabl
7.4 years ago by gaelgarcia ▴ 280
0
votes
0
replies
3.2k
views
Comment: C: retrospective trio analysis from WGS SNPs
7.4 years ago by gaelgarcia ▴ 280
0
votes
0
replies
12k
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Comment: C: get build 37 positions from dbSNP rsIDs
7.4 years ago by gaelgarcia ▴ 280
0
votes
0
replies
16k
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Comment: C: Is there a easy to use GATK pipeline for SNP calling?
7.4 years ago by gaelgarcia ▴ 280
5
votes
3
replies
1.8k
views
SNP panel interrogated by KING for estimating kinship?
king SNP kinship GWAS
7.4 years ago by gaelgarcia ▴ 280
0
votes
1
reply
1.8k
views
Comment: C: SNP panel interrogated by KING for kinship estimation?
7.4 years ago by gaelgarcia ▴ 280
0
votes
1
reply
16k
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Comment: C: Checking kinship coefficients and relationships and comparing genotyping data to
7.4 years ago by gaelgarcia ▴ 280
0
votes
1
reply
16k
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Comment: C: Checking kinship coefficients and relationships and comparing genotyping data to
7.4 years ago by gaelgarcia ▴ 280
0
votes
1
reply
3.2k
views
Comment: C: retrospective trio analysis from WGS SNPs
7.4 years ago by gaelgarcia ▴ 280
0
votes
0
replies
2.7k
views
Comment: C: Negative IBD values
7.4 years ago by gaelgarcia ▴ 280
1
vote
0
replies
15k
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Comment: C: PI_HAT and Z-values for relationships (PLINK IBD calculation)
7.4 years ago by gaelgarcia ▴ 280
0
votes
0
replies
29k
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Comment: C: Download full list of SNPs and their coordinates in hg38
7.4 years ago by gaelgarcia ▴ 280
0
votes
0
replies
20k
views
Comment: C: List Of Dbsnp Rsids And Their Positions
7.4 years ago by gaelgarcia ▴ 280
0
votes
1
reply
12k
views
Comment: C: get build 37 positions from dbSNP rsIDs
7.4 years ago by gaelgarcia ▴ 280
0
votes
2
replies
29k
views
Comment: C: Download full list of SNPs in hg38
7.4 years ago by gaelgarcia ▴ 280
2
votes
2
replies
2.8k
views
Tools to check consistency between VCF genotypes and pedigree-stated sex and family relationships
SNP gatk VCF KING PLINK
updated 7.4 years ago by 11k • written 7.4 years ago by ▴ 280
0
votes
0
replies
2.3k
views
Comment: C: Pedigree from coefficients of relatedness
7.4 years ago by gaelgarcia ▴ 280
4
votes
2
replies
2.2k
views
Obtaining list of / manually specifying interrogation sites in Peddy
SNP peddy pedigree identitycheck
7.4 years ago by gaelgarcia ▴ 280
0
votes
0
replies
2.2k
views
Comment: C: Obtaining list of / specifying interrogation sites in Peddy
7.4 years ago by gaelgarcia ▴ 280
0
votes
2
replies
2.4k
views
Comment: C: Determine whether SNPs in a list fall under the ranges of a BED file
7.4 years ago by gaelgarcia ▴ 280
5
votes
4
replies
2.4k
views
Determine whether SNPs in a list fall under the ranges of a BED file
SNP BED BEDTools R GenomicRanges
updated 7.4 years ago by 36k • written 7.4 years ago by ▴ 280
5
votes
3
replies
3.8k
views
Are different colonies from the same cell line valid biological replicates for DESeq 2?
DESeq2 RNA-Seq R
updated 3.6 years ago by 45k • written 10.2 years ago by ▴ 280
1
vote
0
replies
3.5k
views
Comment: Comment: Is there a good site or software to see if a primer pair spans an exon junction?
updated 3.0 years ago by 45k • written 10.1 years ago by ▴ 280
3
votes
2
replies
3.5k
views
Is there a good site or software to see if a primer pair spans an exon junction?
PCR exons qPCR primers
updated 3.0 years ago by 45k • written 10.1 years ago by ▴ 280
1
vote
2
replies
6.3k
views
Unequal number of technical and biological replicates per sample for RNA-Seq expriment?
DESeq sequencing RNA-Seq R DESeq2
updated 2.8 years ago by 45k • written 10.2 years ago by ▴ 280
0
votes
0
replies
3.8k
views
Comment: C: Are different colonies from the same cell line valid biological replicates for D
10.2 years ago by gaelgarcia ▴ 280
1
vote
0
replies
13k
views
Comment: C: Deseq Question - Input Normalized Read Counts
10.2 years ago by gaelgarcia ▴ 280
0
votes
1
reply
3.5k
views
Comment: C: What Does Requirebothendsmapped From Rsubread Package Means?
10.4 years ago by gaelgarcia ▴ 280
0
votes
0
replies
23k
views
Comment: Comment: Gene Lists Using Principal Component Analysis In Microarray Gene Expression
updated 3.4 years ago by 45k • written 10.6 years ago by ▴ 280
0
votes
1
reply
2.5k
views
How can I save a pvclust object?
pvclust r object
updated 3.3 years ago by 45k • written 10.5 years ago by ▴ 280
0
votes
1
reply
7.6k
views
Comment: C: single cell RNA-seq anlysis, PCA method, how to choose variables which contribut
10.6 years ago by gaelgarcia ▴ 280
0
votes
1
reply
23k
views
Comment: Comment: Gene Lists Using Principal Component Analysis In Microarray Gene Expression
updated 3.4 years ago by 45k • written 10.6 years ago by ▴ 280
0
votes
1
reply
19k
views
Comment: Comment: Scale and Center [normalized] RNA-seq expression counts for PCA ?
updated 3.4 years ago by 45k • written 10.6 years ago by ▴ 280
0
votes
0
replies
5.7k
views
Comment: C: Must paired-end reads be in the same order in the two files for input to Tophat?
10.6 years ago by gaelgarcia ▴ 280
3
votes
4
replies
5.7k
views
Must paired-end reads be in the same order in the two files for input to Tophat?
tophat rna-seq alignment sequencing
updated 2.2 years ago by ▴ 90 • written 10.6 years ago by ▴ 280
0
votes
0
replies
46k
views
Comment: Comment: Why Does Rna-Seq Read Count Fit Poisson Distribution?
updated 3.8 years ago by 45k • written 10.7 years ago by ▴ 280
0
votes
0
replies
46k
views
Comment: C: Why Does Rna-Seq Read Count Fit Poisson Distribution?
10.7 years ago by gaelgarcia ▴ 280
7
votes
3
replies
7.9k
views
How to set a threshold for coefficient of variation in RNA-seq?
dispersion statistics single-cell RNA-Seq variance
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 280
0
votes
1
reply
7.9k
views
Comment: Comment: How to set a threshold for coefficient of variation in RNA-seq?
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 280
3
votes
5
replies
5.2k
views
Single-cell RNA-seq Outlier Identification : How can I find the subset of genes that are expressed in a common set of samples (cells) ? (Fluidigm SIN…
matrix rna-seq R subset single-cell
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 280
0
votes
0
replies
5.2k
views
Comment: Comment: Single-cell RNA-seq Outlier Identification : How can I find the subset of genes
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 280
0
votes
1
reply
5.2k
views
Comment: C: How can I obtain the largest set of rows that share a common set of at least 4 c
10.7 years ago by gaelgarcia ▴ 280
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