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0
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310
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Estimating divergence from EPO ancestral sequences in primates
EPO alignment divergence mutation primate
21 months ago by spiral01 ▴ 110
1
vote
4
replies
4.2k
views
Calculating Tajima's D from vcf data using bed files
SNP
updated 2.0 years ago by • 0 • written 6.3 years ago by ▴ 110
4
votes
8
replies
2.2k
views
Combining vcf files so that same loci data is combined
SNP
written 6.4 years ago by ▴ 110
2
votes
4
replies
3.4k
views
Set ancestral alleles to upper case in vcf file
SNP
updated 2.5 years ago by • 0 • written 6.1 years ago by ▴ 110
3
votes
11
replies
13k
views
Writing vcf file headers
SNP vcf
updated 3.6 years ago by ▴ 40 • written 6.2 years ago by ▴ 110
0
votes
1
reply
632
views
Masking selected sites in human genome
Assembly genome mask
3.8 years ago by spiral01 ▴ 110
0
votes
3
replies
926
views
Removing GC dinucleotides from a sequence
SNP alignment sequence gene
4.1 years ago by spiral01 ▴ 110
2
votes
2
replies
1.3k
views
Problems when installing Grapes and Bio++ tools
software error
4.7 years ago by spiral01 ▴ 110
1
vote
3
replies
1.9k
views
Bioawk - using bash variables
awk software error
updated 4.8 years ago by ★ 2.2k • written 4.8 years ago by ▴ 110
0
votes
1
reply
1.4k
views
.axt formats for pairwise alignments and how to convert to paml
alignment
updated 4.8 years ago by 20 • written 4.9 years ago by ▴ 110
7
votes
12
replies
1.6k
views
1000 genomes coding SNPs not in exonic regions?
SNP
5.2 years ago by spiral01 ▴ 110
0
votes
0
replies
627
views
simulating slightly deleterious mutations in humans using a gamma distribution
snp
5.5 years ago by spiral01 ▴ 110
0
votes
0
replies
2.4k
views
Selscan error: Variant physical position must be strictly increasing.
SNP selscan map
6.0 years ago by spiral01 ▴ 110
1
vote
1
reply
1.2k
views
vcflib GPAT++: How to select all individuals as targets?
SNP vcf vcflib GPAT++
6.1 years ago by spiral01 ▴ 110
2
votes
1
reply
2.0k
views
Extract all genotype counts from phased data in vcf files
vcf SNP
updated 6.1 years ago by 161k • written 6.1 years ago by ▴ 110
3
votes
1
reply
1.6k
views
Number of individuals in 1000genomes superpopulations?
SNP
updated 6.2 years ago by ★ 1.9k • written 6.2 years ago by ▴ 110
0
votes
0
replies
906
views
ensembl Chimpanzee variants - No frequency or GT info?
SNP
6.3 years ago by spiral01 ▴ 110
0
votes
0
replies
1.2k
views
popfly drosophila database: vcf files with N alleles
SNP
6.3 years ago by spiral01 ▴ 110
9
votes
11
replies
2.5k
views
counting number of variants within specified windows
SNP genome
updated 6.3 years ago by 21k • written 6.3 years ago by ▴ 110
0
votes
1
reply
1.5k
views
Creating bed files for consecutive genomic windows out from polymorphisms
SNP
6.3 years ago by spiral01 ▴ 110
4
votes
9
replies
5.9k
views
bedtools window - killed: 9 error
SNP
updated 6.3 years ago by 35k • written 6.3 years ago by ▴ 110
2
votes
5
replies
4.5k
views
vcf files: counting number of variants in genomic windows of chosen size
SNP
updated 6.3 years ago by 35k • written 6.3 years ago by ▴ 110
1
vote
11
replies
2.0k
views
Discrepencies between ANNOVAR and Gencode annotations of 1000 genomes
SNP 1000genomes annotation
updated 6.4 years ago by 20 • written 6.5 years ago by ▴ 110
2
votes
3
replies
1.6k
views
Precedence between alt field and GT info in vcf files
SNP
updated 6.4 years ago by ★ 2.9k • written 6.4 years ago by ▴ 110
4
votes
6
replies
5.8k
views
Quickest way to filter vcf using bed files
SNP
6.4 years ago by spiral01 ▴ 110
0
votes
0
replies
1.9k
views
Denisovan and Neanderthal vcf files
SNP
6.5 years ago by spiral01 ▴ 110
0
votes
2
replies
2.4k
views
Annovar: Error when downloading dm6 drosophila database
SNP
updated 6.6 years ago by 87k • written 6.6 years ago by ▴ 110
0
votes
1
reply
1.4k
views
Annotating Altai Neanderthal and Denisovan variants
SNP
6.6 years ago by spiral01 ▴ 110
1
vote
4
replies
3.1k
views
Using multiple filters in BiomaRt's getSequence
r biomart ensembl
updated 6.7 years ago by 23k • written 6.7 years ago by ▴ 110
2
votes
4
replies
1.8k
views
Denisovan and Altai Neanderthal .bed files?
snp
6.7 years ago by spiral01 ▴ 110
3
votes
2
replies
1.3k
views
Estimating site information from 1000 genomes vcf data
SNP
6.7 years ago by spiral01 ▴ 110
0
votes
1
reply
2.0k
views
snpEff 'WARNING_REF_DOES_NOT_MATCH_GENOME' during hg38 annotation
SNP
6.7 years ago by spiral01 ▴ 110
4
votes
5
replies
2.3k
views
1000genomes: choosing the best annotation from multiple transcripts
genome SNP
updated 6.8 years ago by ▴ 400 • written 6.8 years ago by ▴ 110
14
votes
12
replies
4.3k
views
How large are 1000genomes vcf files?
vcf
updated 6.8 years ago by 100k • written 6.8 years ago by ▴ 110
0
votes
1
reply
1.7k
views
PyVCF error: KeyError: 'ANN' when appending annotation fields to a list
python PyVCF snp
6.8 years ago by spiral01 ▴ 110
4
votes
11
replies
2.3k
views
Acquiring and combining hg38 SNP and gene data
SNP gene
updated 6.9 years ago by ▴ 580 • written 6.9 years ago by ▴ 110
2
votes
2
replies
2.3k
views
Calculating LRT of a phylogenetic tree (as in codeml)
codeml paml lrt
updated 7.7 years ago by ★ 3.8k • written 7.7 years ago by ▴ 110
2
votes
1
reply
1.6k
views
phylogenetics: collapsing descendant tips of an internal node
phylogenetics r
7.7 years ago by spiral01 ▴ 110
1
vote
2
replies
6.1k
views
Phylogenetics in R: obtaining internal branch lengths
R phylogenetics ape
updated 7.9 years ago by ▴ 150 • written 7.9 years ago by ▴ 110
7
votes
6
replies
25k
views
Rooting phylogenetic trees in R using Ape's root function: Trees don't seem to root.
phylogenetics R
8.0 years ago by spiral01 ▴ 110
2
votes
3
replies
1.9k
views
Parsing PhyloXML to split gene trees at duplication nodes
PhyloXML BioPython gene trees
updated 8.0 years ago by ★ 2.8k • written 8.0 years ago by ▴ 110
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