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0
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181
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Estimating divergence from EPO ancestral sequences in primates
EPO alignment divergence mutation primate
9 months ago by spiral01 ▴ 110
1
vote
4
replies
3.3k
views
Calculating Tajima's D from vcf data using bed files
SNP
updated 12 months ago by • 0 • written 5.2 years ago by ▴ 110
4
votes
8
replies
1.8k
views
Combining vcf files so that same loci data is combined
SNP
written 5.3 years ago by ▴ 110
2
votes
4
replies
2.7k
views
Set ancestral alleles to upper case in vcf file
SNP
updated 17 months ago by • 0 • written 5.0 years ago by ▴ 110
3
votes
11
replies
10k
views
Writing vcf file headers
SNP vcf
updated 2.6 years ago by ▴ 30 • written 5.2 years ago by ▴ 110
0
votes
1
reply
471
views
Masking selected sites in human genome
Assembly genome mask
2.8 years ago by spiral01 ▴ 110
0
votes
3
replies
717
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Removing GC dinucleotides from a sequence
SNP alignment sequence gene
3.0 years ago by spiral01 ▴ 110
2
votes
2
replies
1.0k
views
Problems when installing Grapes and Bio++ tools
software error
3.7 years ago by spiral01 ▴ 110
1
vote
3
replies
1.4k
views
Bioawk - using bash variables
awk software error
updated 3.8 years ago by ★ 2.2k • written 3.8 years ago by ▴ 110
0
votes
1
reply
1.2k
views
.axt formats for pairwise alignments and how to convert to paml
alignment
updated 3.8 years ago by 20 • written 3.8 years ago by ▴ 110
7
votes
12
replies
1.2k
views
1000 genomes coding SNPs not in exonic regions?
SNP
4.2 years ago by spiral01 ▴ 110
0
votes
0
replies
523
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simulating slightly deleterious mutations in humans using a gamma distribution
snp
4.5 years ago by spiral01 ▴ 110
0
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0
replies
2.1k
views
Selscan error: Variant physical position must be strictly increasing.
SNP selscan map
5.0 years ago by spiral01 ▴ 110
1
vote
1
reply
1.0k
views
vcflib GPAT++: How to select all individuals as targets?
SNP vcf vcflib GPAT++
5.0 years ago by spiral01 ▴ 110
2
votes
1
reply
1.7k
views
Extract all genotype counts from phased data in vcf files
vcf SNP
updated 5.0 years ago by 153k • written 5.0 years ago by ▴ 110
3
votes
1
reply
1.5k
views
Number of individuals in 1000genomes superpopulations?
SNP
updated 5.2 years ago by ★ 1.8k • written 5.2 years ago by ▴ 110
0
votes
0
replies
766
views
ensembl Chimpanzee variants - No frequency or GT info?
SNP
5.2 years ago by spiral01 ▴ 110
0
votes
0
replies
1.1k
views
popfly drosophila database: vcf files with N alleles
SNP
5.2 years ago by spiral01 ▴ 110
9
votes
11
replies
1.9k
views
counting number of variants within specified windows
SNP genome
updated 5.2 years ago by 21k • written 5.2 years ago by ▴ 110
0
votes
1
reply
1.3k
views
Creating bed files for consecutive genomic windows out from polymorphisms
SNP
5.3 years ago by spiral01 ▴ 110
4
votes
9
replies
4.8k
views
bedtools window - killed: 9 error
SNP
updated 5.3 years ago by 34k • written 5.3 years ago by ▴ 110
2
votes
5
replies
3.8k
views
vcf files: counting number of variants in genomic windows of chosen size
SNP
updated 5.3 years ago by 34k • written 5.3 years ago by ▴ 110
1
vote
11
replies
1.6k
views
Discrepencies between ANNOVAR and Gencode annotations of 1000 genomes
SNP 1000genomes annotation
updated 5.3 years ago by 20 • written 5.5 years ago by ▴ 110
2
votes
3
replies
1.4k
views
Precedence between alt field and GT info in vcf files
SNP
updated 5.4 years ago by ★ 2.9k • written 5.4 years ago by ▴ 110
4
votes
6
replies
4.8k
views
Quickest way to filter vcf using bed files
SNP
5.4 years ago by spiral01 ▴ 110
0
votes
0
replies
1.7k
views
Denisovan and Neanderthal vcf files
SNP
5.4 years ago by spiral01 ▴ 110
0
votes
2
replies
2.0k
views
Annovar: Error when downloading dm6 drosophila database
SNP
updated 5.5 years ago by 85k • written 5.5 years ago by ▴ 110
0
votes
1
reply
1.2k
views
Annotating Altai Neanderthal and Denisovan variants
SNP
5.5 years ago by spiral01 ▴ 110
1
vote
4
replies
2.7k
views
Using multiple filters in BiomaRt's getSequence
r biomart ensembl
updated 5.6 years ago by 23k • written 5.6 years ago by ▴ 110
2
votes
4
replies
1.6k
views
Denisovan and Altai Neanderthal .bed files?
snp
5.6 years ago by spiral01 ▴ 110
3
votes
2
replies
1.1k
views
Estimating site information from 1000 genomes vcf data
SNP
5.7 years ago by spiral01 ▴ 110
0
votes
1
reply
1.8k
views
snpEff 'WARNING_REF_DOES_NOT_MATCH_GENOME' during hg38 annotation
SNP
5.7 years ago by spiral01 ▴ 110
4
votes
5
replies
1.9k
views
1000genomes: choosing the best annotation from multiple transcripts
genome SNP
updated 5.7 years ago by ▴ 400 • written 5.7 years ago by ▴ 110
14
votes
12
replies
3.5k
views
How large are 1000genomes vcf files?
vcf
updated 5.8 years ago by 97k • written 5.8 years ago by ▴ 110
0
votes
1
reply
1.5k
views
PyVCF error: KeyError: 'ANN' when appending annotation fields to a list
python PyVCF snp
5.8 years ago by spiral01 ▴ 110
4
votes
11
replies
1.9k
views
Acquiring and combining hg38 SNP and gene data
SNP gene
updated 5.8 years ago by ▴ 580 • written 5.8 years ago by ▴ 110
2
votes
2
replies
2.0k
views
Calculating LRT of a phylogenetic tree (as in codeml)
codeml paml lrt
updated 6.7 years ago by ★ 3.7k • written 6.7 years ago by ▴ 110
2
votes
1
reply
1.4k
views
phylogenetics: collapsing descendant tips of an internal node
phylogenetics r
6.7 years ago by spiral01 ▴ 110
1
vote
2
replies
5.4k
views
Phylogenetics in R: obtaining internal branch lengths
R phylogenetics ape
updated 6.9 years ago by ▴ 150 • written 6.9 years ago by ▴ 110
7
votes
6
replies
22k
views
Rooting phylogenetic trees in R using Ape's root function: Trees don't seem to root.
phylogenetics R
6.9 years ago by spiral01 ▴ 110
2
votes
3
replies
1.7k
views
Parsing PhyloXML to split gene trees at duplication nodes
PhyloXML BioPython gene trees
updated 7.0 years ago by ★ 2.8k • written 7.0 years ago by ▴ 110
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