locuszoom-standalone

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Need recombination rates for GRCh38

20

So far I've been unable to find recombination rates for GRCh38. May need to liftover the previous GRCh37 rates. The GRCh37 rates currently in locuszoom were generated by lifting over...

welchr

I am wondering whether Python 3.0 is supported by locuszoom or not? Thanks. Shicheng

Shicheng-Guo

Is there another place to download from that would be more stable?

simoond

Error: object 'refFlat' not found

2

Hi, I'm getting an error message regarding refFlat which I cannot immediately place. How should I interpret it? In this case I'd like to plot a region near rs12936587 on...

swvanderlaan

While running the following command: ```bash locuszoom --build hg38 --metal smallregion.assoc.txt --markercol rs --pvalcol p_score --ld-vcf region.vcf.gz --refsnp chr8:1234 --chr chr8 ``` An error is thrown, despite all chromosome names...

agilly

Hi, I have installed locuszoom on our server and when I try to run: locuszoom -h I get the following syntax error. Can you help me resolve it please? FIle"/PATH/locuszoom/bin/../src/m2zfast.py",...

BKhalili

I am trying to run the following command : locuszoom --build hg38 --metal SNPs.txt --pop EUR --source 1000G_Nov2014 --refgene BIRC3 --bed-tracks chip_seq.bed However, the plot generated does not include the...

Diwadkar

- Changed `--epacts-chrom-col` to `--epacts-chr-col` - Renamed the `.conf` file

babak-ra

"Extracting region of interest from input file" causing a long delay

2

I need to plot several regions using LocusZoom. For some regions plotting is very fast, only taking a few seconds. For others I have experienced waiting for 30 mins+ on...

oyhel

Error updating with lzupdate due to wrong RsMergeArch URL

1

The correct URL is now ftp://ftp.ncbi.nih.gov/snp/organisms/human_9606/database/organism_data/RsMergeArch.bcp.gz

marcora