locuszoom

In my experience, this invariably means that the alleles are not properly aligned to REF/ALT . ie

For format instructions, see these instructions (PLINK 1.9. LD tab). https://statgen.github.io/

I would like to report that the LD was successfully colored when I used LocusZoom, not LocalZoom. I

hi, have you removed unnecessary tag from pval column, before making plot.... if so, then filter out

***Update; please disregard. Not a site issue as you anticipated. User error; my previous file was

It's been a while, but as far as I recall, UI should always show what the user selected on input.

Thanks for the update Andy. FWIW: Actually, late yesterday I checked and I WAS able to log in without

Greetings, This is a very broad question- it's a bit hard to suggest a solution without an idea

We will be performing scheduled maintenance on the server hosting my.locuszoom.org and related API

Thanks. Two notes: first, based on the JS there may be a section of your code that you are not

Hi Andrew, Thank you so much for the quick answer. I have made public the GWAS on LocusZoom webpage (

The syntax might depend slightly on which version of locuszoom you are using and what fields are in

fyi, i managed to make it work const stateUrlMapping = {chr: "chrom", start: "start

Hi, there: I have a couple of SNPs. I want to quickly see what genes are around them, and if there is

Removing line 319 in your screenshot might be a start. But for other lines of code, you'll need

Greetings all. We have received notice that our servers and sites are restored. Apologies for the

As mentioned elsewhere in the list, we are currently experiencing a severe university wide internet

UM campus internet connectivity is currently experiencing a major outage that is affecting LocusZoom

Dear Locuszoom Groups: I have come across a problem. I extract two .txt file of chromosome 7 and

Dear Ran Xu: I have come across the same problem. I'm wandering if you have solved this problem?

Greetings, I have cleaned up old files on the server to free up storage. However, please note that

https://genome.sph.umich.edu/wiki/LocusZoom_Standalone#Quick_Start_.28Requirements.29 On Monday, May

Dear Sir, I am currently using on the Linux Cluster System and trying to generate LocusZoom plots.

I got the same error in my vcf file: "index SNP position *** does not exist in file..". I

I did see that it was a rather simple command in linux so I'll try and give it a go. Thanks for

Dear LocusZoom admin, First off, here is how my input file is formatted: CHR POS REF ALT AF P 1 23197

The most common reasons: https://my.locuszoom.org/about/#missing-ld -Andy Boughton abo...@umich.edu

Hi, guys: I have 3 quick questions. I would deeply appreciate if someone could shed lights. 1. For

Thanks for the question. Web browsers don't allow you to access random files on your hard drive

Thanks for the reply! Per ref/alt, that's often, but not exactly, true. Strictly speaking, this