The previous article in this series is Using Genome Mate Part 2 (Importing GEDmatch One To One Comparison Data).
Thanks to some great programming work by Becky Walker, the developer of Genome Mate, there is a new option for importing lots of match data at a time into Genome Mate, using Sue Griffith’s method of an alternate to the GEDmatch triangulation tool for locating shared segments with other testers (as also shown step by step in my last blog post). In this blog post, I will walk through the new Genome Mate import process step by step.
As shown in my last blog post, use Sue Griffith’s method to obtain a results page of shared segments in common with other people at GEDmatch, and then open up your Genome Mate software.
1) In Genome Mate, after making sure you have first backed up your database, select the profile for which you wish to add match data and click on the Import Data link in the menu bar near the top of the program window. (Note: the profile you are importing to must have the GEDmatch kit number of the profile person entered for the import process to work).
2) Clicking on the Import Data link will bring up the Import Data window. Select the radio button next to GedMatch in the Select Data Source section, and then click on the (1) Load GedMatch Chromosome Browser Data link in the GedMatch Import Options section.
3) Clicking on the (1) Load GedMatch Chromosome Browser Data link in the GedMatch Import Options section will bring up another Import Data window. Click once inside the rectangular box, and then switch back over to your Internet browser where you have the results page of shared segments in common with other people at GEDmatch.
4) On the GEDmatch results page, select everything on the page (Windows users hold down the Control key and press the A key on your keyboard, Mac users hold down the Command key and press the A key on your keyboard). Copy the data (Windows users hold down the Control key and press the C key on your keyboard, Mac users hold down the Command key and press the C key on your keyboard), and then return to your Genome Mate software.
5) Back in Genome Mate, inside the rectangular box of the Import Data window, paste the data you previously copied from GEDmatch (Windows users hold down the Control key and press the V key on your keyboard, Mac users hold down the Command key and press the V key on your keyboard). Although the instructions warn that only the Chrome and Firefox browsers are supported, I have found that as of version 1.2.19 of Genome Mate, the Safari browser also works in most cases. After pasting your data into the box, click on the Format button.
6) Clicking the Format button will bring up yet another Import Data window, showing the chromosomes and segments that are about to be imported. Before continuing, it’s always a good idea to make sure the profile listed is the one you want to import data to. After making sure you are importing to the correct profile, it’s also a good idea to take a quick look through the list to make sure everything appears ok. In the last column, in the Message field, you will see one of four things: a blank field, “Adding relative record”, “Duplicate match”, or “cMs below 7.0” (or the segment length threshold level you have set if you have entered something in place of the default value),
A blank field means the person you match with already has a record in your Genome Mate database, but this segment is new to your database and will be added. Adding relative record means the person you match with does not already have a record in your Genome Mate database, and they are being added to your database along with this segment data. Duplicate match means the person you match with already has a record in your Genome Mate database with this same segment data, so nothing additional needs to be added to your database for this segment. When it says “cMs below…”, it means the segment length is below the threshold level set in Genome Mate (7 cM by default, which is recommended), and this segment data will not be added into your database.
After reviewing to make sure there are not any obvious errors being reported in what you are about to import, click on the Add Data button.
(Note: If you get an error message saying “GedMatch Kit #s not found in pasted data,” check to make sure that you have selected the (1) Load GedMatch Chromosome Browser Data link and have not mistakenly selected one of the other options.)
7) Clicking on the Add Data button will bring up the Import Summary window. This acts as a confirmation that the data was imported, as long as Matches Added and Relative records added are not both 0 (zero). If they are both zero, this is letting you know that something went wrong, and you should repeat steps 1 through 6 above. After verifying you do not have zeros for both Matches Added and Relative records added, click the Close button.
8) Clicking the Close button returns you to the previous Import Data window, minus the Add Data button, and you can now click the Close button in the Import Data window.
9) Clicking the Close button in the Import Data window will return you to the main Genome Mate screen. You can now begin working with your newly imported data, or go back through these steps to continue importing additional matches (for this profile, or for another of your Genome Mate profiles). Before proceeding, however, it is a good idea to do yet another backup of your Genome Mate database.
In the next post in this series, we will begin working more with the tools available in Genome Mate as we continue progressing towards generating a chromosome map of our DNA inheritance.
If you experience any problems while following these steps, or notice that a screen has changed from what I’ve shown in the screenshots, please let me know by commenting on this thread or sending me an email. Thanks for reading.
This article last updated 20 Oct 2014