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3.4k
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haplotype network analysis with Pegas package in R
haplotype
pegas
R
updated 3.3 years ago by
pmc.sa
▴ 40 • written 4.6 years ago by
Ana
▴ 200
4
votes
5
replies
6.1k
views
VariantsToTable in GATK does not produce the table of all SNPs in the vcf file
GATK
updated 3.7 years ago by
BunnyBosZ
• 0 • written 6.3 years ago by
Ana
▴ 200
0
votes
1
reply
6.5k
views
Comment:
C: add sample name to bam header based on bam file name
3.9 years ago by
Ana
▴ 200
1
vote
1
reply
6.5k
views
Comment:
C: add sample name to bam header based on bam file name
3.9 years ago by
Ana
▴ 200
3
votes
5
replies
6.5k
views
add sample name to bam header based on bam file name
samtools
updated 3.9 years ago by
Pierre Lindenbaum
164k • written 3.9 years ago by
Ana
▴ 200
0
votes
0
replies
742
views
convert bam to cram with non-local reference fasta
samtools
cram
3.9 years ago by
Ana
▴ 200
0
votes
3
replies
8.5k
views
012 genotype matrix using vcf tools
vcftools
genotype-matrix
updated 17 months ago by
Ram
44k • written 7.3 years ago by
Ana
▴ 200
1
vote
2
replies
1.5k
views
how to calculate the proportion of SNPs with DP more than 5
r
depth of coverage
updated 5.0 years ago by
Biostar
20 • written 7.2 years ago by
Ana
▴ 200
0
votes
0
replies
993
views
how to calculate genetic position for each marker from the genetic map file?
genetic-position
map
updated 20 months ago by
Ram
44k • written 5.6 years ago by
Ana
▴ 200
5
votes
1
reply
1.2k
views
how to assign SNPs to each gene with overlapping intervals in r?
r
updated 5.7 years ago by
Alex Reynolds
36k • written 5.7 years ago by
Ana
▴ 200
3
votes
1
reply
1.8k
views
Assign a genomic region to a window
R
windows
bioconductor
GenomicRanges
updated 5.7 years ago by
benformatics
4.0k • written 5.7 years ago by
Ana
▴ 200
0
votes
2
replies
4.0k
views
How to add significance level to correlation heatmap using ggplot2
ggplot
correlation
r
updated 5.8 years ago by
Alex Reynolds
36k • written 5.8 years ago by
Ana
▴ 200
2
votes
7
replies
4.0k
views
extract sample DP values from VCF
vcf
perl
vcftools
updated 17 months ago by
Ram
44k • written 7.7 years ago by
Ana
▴ 200
3
votes
1
reply
3.6k
views
difference between read depth (DP) at site (INFO) and sample(FORMAT) level
read depth
vcf
updated 6.0 years ago by
zx8754
12k • written 7.7 years ago by
Ana
▴ 200
4
votes
6
replies
1.6k
views
Attaching genotypes in the vcf files to individual ID
genotype
updated 6.0 years ago by
zx8754
12k • written 6.6 years ago by
Ana
▴ 200
3
votes
1
reply
8.6k
views
genomic inflation factor and how to use it to estimate adjusted P-values in GWAS?
GWAS
lambda
updated 6.0 years ago by
Fabio Marroni
★ 3.0k • written 6.0 years ago by
Ana
▴ 200
0
votes
1
reply
2.3k
views
SNPs in high LD after LD pruning
LD
SNPrelate
updated 6.2 years ago by
Kevin Blighe
88k • written 6.2 years ago by
Ana
▴ 200
0
votes
0
replies
6.1k
views
Comment:
C: VariantsToTable in GATK does not produce the table of all SNPs in the vcf file
6.3 years ago by
Ana
▴ 200
1
vote
2
replies
1.5k
views
tools to align DNA sequences against protein sequence
fastq
alignment
DNA
updated 20 months ago by
Ram
44k • written 6.4 years ago by
Ana
▴ 200
1
vote
0
replies
1.5k
views
hypergeometric test on outlier SNPs
outliers
hypergeometric test
R
6.4 years ago by
Ana
▴ 200
1
vote
1
reply
1.3k
views
TukeyHSD does not match the box plot
depth of coverage
anova
6.4 years ago by
Ana
▴ 200
1
vote
18
replies
4.7k
views
Compute correlation for depth of coverage between 2 datasets with different length in R
depth of coverage
correlation
R
updated 6.6 years ago by
zx8754
12k • written 6.6 years ago by
Ana
▴ 200
0
votes
1
reply
4.7k
views
Comment:
C: compute correlation for depth of coverage between 2 datasets with different leng
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
4.7k
views
Comment:
C: compute correlation for depth of coverage between 2 datasets with different leng
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
4.7k
views
Comment:
C: compute correlation for depth of coverage between 2 datasets with different leng
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
4.7k
views
Comment:
C: compute correlation for depth of coverage between 2 datasets with different leng
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
4.7k
views
Comment:
C: compute correlation for depth of coverage between 2 datasets with different leng
6.6 years ago by
Ana
▴ 200
12
votes
29
replies
6.5k
views
compute depth of coverage for certain regions of the genome using samtools depth
depth of coverage
samtools
updated 6.6 years ago by
finswimmer
16k • written 6.6 years ago by
Ana
▴ 200
0
votes
1
reply
1.6k
views
Comment:
C: attaching genotypes in the vcf files to individual ID
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
1.6k
views
Comment:
C: attaching genotypes in the vcf files to individual ID
6.6 years ago by
Ana
▴ 200
0
votes
0
replies
2.6k
views
Comment:
C: no output after running samtools depth
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
2.6k
views
Comment:
C: no output after running samtools depth
6.6 years ago by
Ana
▴ 200
2
votes
5
replies
2.6k
views
no output after running samtools depth
samtools
bam
6.6 years ago by
Ana
▴ 200
0
votes
3
replies
6.5k
views
Comment:
C: compute depth of coverage for certain regions of the genome using samtools depth
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
6.5k
views
Answer:
A: compute depth of coverage for certain regions of the genome using samtools depth
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
6.5k
views
Comment:
C: compute depth of coverage for certain regions of the genome using samtools depth
6.6 years ago by
Ana
▴ 200
0
votes
2
replies
6.5k
views
Comment:
C: compute depth of coverage for certain regions of the genome using samtools depth
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
6.5k
views
Comment:
C: compute depth of coverage for certain regions of the genome using samtools depth
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
6.5k
views
Comment:
C: compute depth of coverage for certain regions of the genome using samtools depth
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
6.5k
views
Comment:
C: compute depth of coverage for certain regions of the genome using samtools depth
6.6 years ago by
Ana
▴ 200
4
votes
4
replies
1.9k
views
downloading 1000 genomes project bam files in the background
bam
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
4.7k
views
Comment:
C: downloading bam files of phase 3 of 1000 genomes project
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
4.7k
views
Comment:
C: downloading bam files of phase 3 of 1000 genomes project
6.6 years ago by
Ana
▴ 200
0
votes
1
reply
4.7k
views
Comment:
C: downloading bam files of phase 3 of 1000 genomes project
6.6 years ago by
Ana
▴ 200
4
votes
8
replies
4.7k
views
downloading bam files of phase 3 of 1000 genomes project
1000genomes
bam
updated 20 months ago by
Ram
44k • written 6.6 years ago by
Ana
▴ 200
0
votes
0
replies
1.1k
views
estimate population allele frequencies with EM (expectation-maximation) algorithm using R
R
EM algorithm
6.7 years ago by
Ana
▴ 200
2
votes
2
replies
1.3k
views
how to handle reads that mapped to multiple genes
alignment
whole genome sequencing
updated 6.9 years ago by
h.mon
35k • written 6.9 years ago by
Ana
▴ 200
0
votes
1
reply
2.0k
views
Comment:
C: multiple DNA reads aligned to the same gene
6.9 years ago by
Ana
▴ 200
0
votes
1
reply
2.0k
views
Comment:
C: multiple DNA sequences aligned to the same gene
6.9 years ago by
Ana
▴ 200
4
votes
5
replies
2.0k
views
multiple DNA reads aligned to the same gene
alignment
protein
whole genome
6.9 years ago by
Ana
▴ 200
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