Hi, I have been trying to run SnpEff in Galaxy, but have been facing a number of issues that I am not sure how to resolve. Background: I am analysis different strains of Mycobacterium tuberculosis. I have created a vcf file, and would now like to see the effects of my variants, hence I am using Snp…

Hmm, from your description (which is very detailed BTW - thanks for that!) there does not seem to be anything wrong here. Those two lines of output are how Galaxy presents the newly downloaded genome to you. After all, SnpEff genome files are kept in a binary format and there is not really a more he…

SnpEff errors while trying to run the tool

usegalaxy.org support

jennaj March 30, 2020, 4:16pm 4

Linked Q&A: How to add Triticum aestivum snpEff4.3 genome database or appropriate wheat genome database in Galaxy for VCF annotation?

Topic		Replies	Views
How to add Triticum aestivum snpEff4.3 genome database or appropriate wheat genome database in Galaxy for VCF annotation? usegalaxy.org support snpeff	10	2152	March 30, 2020
Snpeff eff error due to missing database version usegalaxy.org support snpeff	3	820	January 30, 2020
Snpeff errors=numbers of variants process variant-analysis , snpeff	10	1392	April 9, 2021
Incomplete annotation by SnpEff eff usegalaxy.eu support	0	356	July 12, 2019
Error in snpeff tool for download databae galaxy-local , variant-analysis , snpeff	5	2371	February 2, 2020

SnpEff errors while trying to run the tool

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