Louis Kessler’s Behold Blog The Behold User Forum
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61.
The Life and Death of a DNA Segment - Blog entry by lkessler - 19 Aug 2019
... 15 cM segment. Part of this is due to the incorrect thinking that a segment of your DNA has been around forever and has been passed down from some ancient ancient ancestor to you and to just about everyone else. Since there is only a 1/2 chance that each generation gets the segment from the right parent, the argument is that it gets offset maybe by the more than 2 ...
62.
50 Years, Travelling Salesman, Python, 6 Hours - Blog entry by lkessler - 7 Aug 2019
... to program language to use for smaller tasks such as analysis of raw data files from DNA tests, or even analysis of the huge 100 GB BAM files from my Whole Genome Sequencing test. Over the last year or so, I had been looking with interest at the language Python (which is not named after the snake but is named after Monty Python’s Flying Circus). Python has been moving ...
63.
Determining VCF Accuracy - Blog entry by lkessler - 13 May 2019
... need this initially set this up. Wilhelm HO has good set of them included with his DNA Kit Studio. The positions of variants in your gVCF file should be marked as no-calls. Many of these variants are false, but we don’t want them to break a match. The positions of variants in your filtered VCF should be marked as having that variant. This will overwrite most of ...
64.
Creating a Raw Data File from a WGS BAM file - Blog entry by lkessler - 12 May 2019
... last post if I could create a raw data file that could be uploaded to to GEDmatch or DNA testing company from my Whole Genome Sequencing (WGS) results. I was trying to use one of the Variant Call Format (VCF) files. Those only include where you vary from the human reference. So logically you would think that all the locations not listed must be human reference values. But ...
65.
WGS – The Raw VCF file and the gVCF file - Blog entry by lkessler - 7 May 2019
... everything that is needed to generate a raw data file that can be uploaded to various DNA sites for people matching. The VCF file contains SNPs that vary from the standard human reference genome. The thinking is then that any SNPs needed for the raw data file (to match with the SNPs that are tested by the chips used by Ancestry, 23andMe, Family Tree
66.
Whole Genome: The VCF File, Part 2 - Blog entry by lkessler - 22 Apr 2019
A couple of months ago, I compared my VCF file to my DNA test results. The Variant Call Format (VCF) file is given to you when you do a Whole Genome Sequence (WGS) test. That test finds your DNA values for your whole genome, all 3 billion positions, not just the 700,000 or so positions that a standard ...
67.
Compare Your Number of DNA Matches Among Companies - Blog entry by lkessler - 21 Apr 2019
... Facebook trying to compare the number of relative matches a person hade at different DNA testing companies. Here's my results with my endogamy: Note that there are a few things to consider when you or anyone else does a comparison of your number of DNA matches. A few companies only give you a specific number of matches. GEDmatch ...
68.
WGS Long Reads Might Not Be Long Enough - Blog entry by lkessler - 17 Apr 2019
... offers their standard short read WGS for $599, but if you want it, you can wait for DNA Day or other sales, and I’m sure it will come down. In October, when Dante had my sample, I had started reading about long read WGS technology, so I asked Dante if they had that technology available. They said they did. I asked how much that would be. They said $1,750 USD. I asked ...
69.
Advanced Genetic Genealogy - Blog entry by lkessler - 13 Apr 2019
... course. You’ll have to have experience and the knowledge of working with your DNA to fully grasp what is said. Let’s see what can be learned. 1. Jim Bartlett talks about Segment Triangulation. Now you have a choice. You can either spend hundreds of hours like I did delving to understand every detail in his four years of blog posts on his segmentology.org ...
70.
Combine Kits into One Superkit on GEDmatch Genesis - Blog entry by lkessler - 6 Apr 2019
... GEDmatch Genesis, and reported the results in my post: The Benefits of Combining Your DNA Raw Data. I thought I’d try the new GEDmatch Genesis application to see if it produces essentially the same result. I selected the Tier 1 “Combine mupltiple kits into 1 superkit” application and it gave the the option to select up to 4 kits that are already uploaded. I had all ...
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