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32
votes
10
replies
16k
views
8 follow
How to efficiently remove a list of reads from BAM file?
RNA-Seq BAM samtools Sam
updated 21 months ago by 3.0k • written 8.3 years ago by ▴ 530
9
votes
4
replies
8.1k
views
Genetic Map file format: how to understand the combined_rate column and the genetic_map column ?
genetic map centimorgan
updated 3.5 years ago by • 0 • written 7.4 years ago by ▴ 530
0
votes
0
replies
1.3k
views
Comment: C: Plink with hwe option does not work
3.9 years ago by Tao ▴ 530
0
votes
1
reply
1.3k
views
Answer: A: Plink with hwe option does not work
3.9 years ago by Tao ▴ 530
0
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1
reply
2.2k
views
Answer: A: color gradient for heatmap2
3.9 years ago by Tao ▴ 530
0
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0
replies
2.3k
views
Comment: C: How to quickly tell the reference allele given chr, pos, A1 and A2 allele?
4.0 years ago by Tao ▴ 530
0
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0
replies
2.3k
views
Comment: C: How to quickly tell the reference allele given chr, pos, A1 and A2 allele?
4.0 years ago by Tao ▴ 530
0
votes
4
replies
2.3k
views
How to quickly tell the reference allele given chr, pos, A1 and A2 allele?
snp reference allele ref allele
4.0 years ago by Tao ▴ 530
4
votes
0
replies
16k
views
Comment: C: How to efficiently remove a list of reads from BAM file?
updated 4.3 years ago by 43k • written 8.3 years ago by ▴ 530
0
votes
0
replies
16k
views
Comment: C: How to efficiently remove a list of reads from BAM file?
updated 4.3 years ago by 43k • written 8.3 years ago by ▴ 530
0
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0
replies
1.3k
views
Comment: C: Inspect the LD relation between a single pair of SNPs in detail using Plink --ld
4.4 years ago by Tao ▴ 530
0
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1
reply
1.3k
views
Comment: C: Inspect the LD relation between a single pair of SNPs in detail using Plink --ld
4.4 years ago by Tao ▴ 530
2
votes
4
replies
1.3k
views
Inspect the LD relation between a single pair of SNPs in detail using Plink --ld
plink --ld LD
updated 4.4 years ago by 10k • written 4.4 years ago by ▴ 530
0
votes
0
replies
3.4k
views
Comment: C: Recoding bim to vcf file with forcing allele-A1
4.8 years ago by Tao ▴ 530
0
votes
0
replies
1.1k
views
How to do Meta-analysis of statistics from T-tests and Wilcoxon rank sum tests?
meta analysis t test wilcoxon rank sum
5.0 years ago by Tao ▴ 530
2
votes
1
reply
2.4k
views
Answer: A: "hrc-1000g-check-bim.py" Unable to open specified bim file
5.0 years ago by Tao ▴ 530
0
votes
0
replies
1.4k
views
How to define the LD interval where a SNP locates?
LD genetics plink
5.4 years ago by Tao ▴ 530
8
votes
3
replies
2.4k
views
How to get gene full description with Ensembl IDs?
gene annotation Ensembl
updated 5.6 years ago by 11k • written 7.2 years ago by ▴ 530
0
votes
0
replies
1.7k
views
Answer: A: How to match alleles for a pair of SNPs using PLINK?
5.9 years ago by Tao ▴ 530
0
votes
1
reply
1.7k
views
How to match alleles for a pair of SNPs using PLINK?
LD Allele matching Plink
5.9 years ago by Tao ▴ 530
1
vote
1
reply
13k
views
Comment: C: Calculating TPM Values
6.1 years ago by Tao ▴ 530
4
votes
1
reply
13k
views
Answer: A: Calculating TPM Values
6.1 years ago by Tao ▴ 530
1
vote
0
replies
60k
views
Comment: Comment: RNA-seq: Explain STAR quantMode geneCounts values
6.1 years ago by Tao ▴ 530
1
vote
0
replies
11k
views
Comment: C: WGCNA signed vs unsigned network
6.4 years ago by Tao ▴ 530
6
votes
1
reply
11k
views
Answer: A: WGCNA signed vs unsigned network
6.4 years ago by Tao ▴ 530
0
votes
0
replies
17k
views
Comment: C: Filtering Imputation output: how to filter on a VCF INFO field
6.4 years ago by Tao ▴ 530
4
votes
0
replies
16k
views
Answer: A: What exactly is sequencing depth in RNAseq?
6.5 years ago by Tao ▴ 530
0
votes
1
reply
3.8k
views
Comment: C: Does it make sense to perform Genotype Imputation using variants called from WES
6.5 years ago by Tao ▴ 530
0
votes
1
reply
3.8k
views
Comment: C: Does it make sense to perform Genotype Imputation using variants called from WES
6.5 years ago by Tao ▴ 530
0
votes
0
replies
3.6k
views
Comment: C: Imputation on two genotyping datasets: should I do imputation separately? or mer
6.5 years ago by Tao ▴ 530
0
votes
1
reply
3.8k
views
Comment: C: Does it make sense to perform Genotype Imputation using variants called from WES
6.5 years ago by Tao ▴ 530
4
votes
7
replies
3.8k
views
Does it make sense to perform Genotype Imputation using variants called from WES?
genotype imputation Whole Exon Sequencing variants
6.5 years ago by Tao ▴ 530
1
vote
5
replies
4.5k
views
In GWAS Studies, how to understand "97 SNPs explain 2.7% of BMI"?
GWAS
updated 6.9 years ago by 8.3k • written 6.9 years ago by ▴ 530
0
votes
1
reply
4.5k
views
Comment: A: In GWAS Studies, how to understand "97 SNPs explain 2.7% of BMI"?
6.9 years ago by Tao ▴ 530
1
vote
1
reply
13k
views
Comment: C: How to remove a list of reads from fastq file?
6.9 years ago by Tao ▴ 530
1
vote
0
replies
3.8k
views
Answer: A: How to access VCF files for Genotype Tissue Expression (GTEx) data
7.2 years ago by Tao ▴ 530
0
votes
0
replies
17k
views
Answer: A: Filtering Imputation output: how to filter on a VCF INFO field
7.4 years ago by Tao ▴ 530
0
votes
0
replies
17k
views
Comment: C: Filtering Imputation output: how to filter on a VCF INFO field
7.4 years ago by Tao ▴ 530
1
vote
1
reply
1.9k
views
Answer: A: paste columns into one line in command line
7.4 years ago by Tao ▴ 530
1
vote
1
reply
3.6k
views
Imputation on two genotyping datasets: should I do imputation separately? or merge the two datasets first?
imputation genotyping eQTL SNPs
7.4 years ago by Tao ▴ 530
1
vote
0
replies
1.7k
views
Can I do eqtl mapping combining RNA-seq and Microarray data?
eqtl RNA-Seq microarray
7.7 years ago by Tao ▴ 530
0
votes
0
replies
5.0k
views
Answer: A: Paired-end RNA Seq data: How to deal with unpaired data after trimmomatic
7.7 years ago by Tao ▴ 530
0
votes
0
replies
13k
views
Comment: C: How to remove a list of reads from fastq file?
7.8 years ago by Tao ▴ 530
10
votes
9
replies
13k
views
6 follow
How to remove a list of reads from fastq file?
fastq shell bash script
updated 17 months ago by • 0 • written 7.8 years ago by ▴ 530
0
votes
1
reply
13k
views
Answer: A: How to remove a list of reads from fastq file?
7.8 years ago by Tao ▴ 530
0
votes
0
replies
13k
views
Comment: C: How to remove a list of reads from fastq file?
7.8 years ago by Tao ▴ 530
0
votes
0
replies
3.8k
views
Comment: C: Should I use reads with good quality but failed-vendor flag?
7.8 years ago by Tao ▴ 530
0
votes
1
reply
3.8k
views
Comment: C: Should I use reads with good quality but failed-vendor flag?
7.8 years ago by Tao ▴ 530
4
votes
7
replies
3.8k
views
Should I use reads with good quality but failed-vendor flag?
sam vendor failed sam flag chastity score
updated 7.8 years ago by ★ 1.2k • written 7.8 years ago by ▴ 530
0
votes
0
replies
3.8k
views
Comment: C: Should I use reads with good quality but failed-vendor flag?
7.8 years ago by Tao ▴ 530
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