You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
Many thanks for developing this tool! I am at Tartu University and am trying to run your pipeline for data of interest - a subset of GWAS loci under natural selection for psoriasis and eQTLs from Scheidel et al 2018.
I followed example input files to prepare input for my data and it seems to be running fine for the most part.
But the pipeline then stops with an error at the coloc step.
I am new to coloc analysis and might be doing some sort of simple mistake in setting input, but not sure where to start.
I wonder if you can help me with this by looking at my log?
I guess we have permissions to each others folders, so here are my paths:
reacted with thumbs up emoji reacted with thumbs down emoji reacted with laugh emoji reacted with hooray emoji reacted with confused emoji reacted with heart emoji reacted with rocket emoji reacted with eyes emoji
-
Hi Nurlan,
Many thanks for developing this tool! I am at Tartu University and am trying to run your pipeline for data of interest - a subset of GWAS loci under natural selection for psoriasis and eQTLs from Scheidel et al 2018.
I followed example input files to prepare input for my data and it seems to be running fine for the most part.
But the pipeline then stops with an error at the coloc step.
I am new to coloc analysis and might be doing some sort of simple mistake in setting input, but not sure where to start.
I wonder if you can help me with this by looking at my log?
I guess we have permissions to each others folders, so here are my paths:
the log:
/gpfs/space/home/bayazit1/Estonian_Genomes/coloc_qQTLs/colocalisation/slurm-16362559.out
files setting input:
/gpfs/space/home/bayazit1/Estonian_Genomes/coloc_qQTLs/colocalisation/nextflow.config
/gpfs/space/home/bayazit1/Estonian_Genomes/coloc_qQTLs/colocalisation/Psoriasis_Schmiedel_2018_eQTLs/gwas_sumstats_test.tsv
/gpfs/space/home/bayazit1/Estonian_Genomes/coloc_qQTLs/colocalisation/Psoriasis_Schmiedel_2018_eQTLs/eqtl_sumstats_permuted.tsv
Beta Was this translation helpful? Give feedback.
All reactions