From your reply I get the impression that it is not possible to just go from the genotype frequency on openSNP to the Links to SNPedia to work out what percentage of population is susceptible to the increased risk without checking if the variant is on the negative strand. Can you confirm if that is correct?
so for rs187238 SNPedia says that GG on the minus strand gives the elevated risk, which the paper says is found in 54% of the population. As it’s on the minus strand we have to look at the CC in openSNP and can see that 54% of openSNP members have that variant too, no?
Also as an aside how do you tell if a SNP is on the negative strand from SNPedia? Is it the - in -137G or something else?
done!
the current cert expires Sunday, 22 November 2020. if it works right then next thursday (tomrorow) we'll have a later cert.
Is it because something needs to be run as
app instead of root for the containers?
I changed it to
0 0 * * * root /usr/local/bin/renew_ssl_cert.sh > /var/log/renew_ssl_cert.log 2>&1 now, let's see...
I remember seeing this the last time I checked. I'll change the Dockerfile to permanently log the output, so we see what happens over time...
When I run it, it still says
Plenty of time to renew, exiting. No sure when it decides its close enough. There is also openSNP/opensnp.org-docker#18 still open.
yes normally when we run it manually we're too late ^^
i.e., the old one
Chill! :smile:
Maybe we should subscribe to the notification emails? https://letsencrypt.org/docs/expiration-emails/
Is it possible or is this available .. I'm looking for SNP data that represent a family over a few generations. Is it readily available as one download. Or how can I search and make up a set of SNPs. Any help is appreciated, apologies if this is not the right question for here, and if the question does not make much sense as I just am starting to get interested in this.
@sharifX @gedankenstuecke I faced a similar problem with my 23andme data. So I wrote an application for it, which display the frequency for the MT and Y Chromosomes (I’m interested mostly in genealogy). It is a web app, and processes the data is your browser:
https://vittorioaccomazzi.github.io/snpsandme/
The application displays the frequency of each rsid using the dbSNP and then sorts them.It also provides link and number of publications. So it allows to explore your genome easily, with the support of dbSNP.
The source code is on github. 🖐 Feedback is welcome !
@gedankenstuecke Thank you. I increased the timeout. I appreciate if you can retry and let me know: https://vittorioaccomazzi.github.io/snpsandme/ .Hopefully it will work this time. In any case in this video you can see how the application works : https://www.youtube.com/watch?v=lUS8Q2-EbyY . In short the application displays the SNPs of the Y and MT chromosome and sort them by frequency. For each SNP it reports the number of publication and links to dbSNP, so you can navigate quickly your genome.