Questions tagged [1000genomes]
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6
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Removing common variants in the 1000 genomes database from .vcf [closed]
I have 15 .vcf files. I need to remove `common variants in the 1000 genomes database' appearing in at least 0.5% of the population
Do you know from where I may start?
Thank you so much
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0answers
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Obtaining HGDP project data in fasta format
I need to obtain sample data from modern humans in fasta format. I just need some megabytes of data from every individual. I actually use a script that obtains the cram file from here (ftp.1000genomes....
1
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1answer
48 views
There's a faster way to download 1000 Genomes phase 3?
I'm trying to download the 1000 Genomes (phase 3) through FTP, but it's taking ages.
I saw the documentation about using Aspera (fasp protocol), but the instructions don't work: ...
0
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1answer
66 views
Simulating phenotype with the 1000 Genomes Project
I'm looking for a way to simulate phenotypes against a real SNP data source, such as the 1000 Genomes. It must be free for commercial purpose (Eg.: MIT license). Any recommendation?
I'm trying to use ...
1
vote
2answers
52 views
1000 genomes missing SNPs on chr X in GRCh38
I am trying to get a reference together for imputation using the 1000 genomes data set. The GRCh38 version of the data set was made available earlier this year, but seems to be missing a significant ...
0
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1answer
67 views
what is the most complete vcf file of population allele frequencies that can be built/downloaded from public datasets?
What is the most complete vcf file of population allele frequencies that can be built/downloaded from public datasets nowadays?
About 5 years or so ago, it used to be the latest release of the CSHL ...
