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Hi,
I am working on the Debian packaging of SnpEff, inside Debian Med team.
On your website, I saw you had a special release for Covid19, with label v4_5covid19.
Would you mind tagging it in Gi…
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I am using the SnpEFF annotated VCF for canine data and trying to convert to MAF format. As instructed in other issues, I have renamed my SnpEff annotated VCF as "test.vcf", created a copy of same VCF…
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As I am reviewing the TB phylogeny pipeline I am noting some issue that should be corrected:
1. SnpEff should be removed as we do not need to annotate these variants
2. a SNP matrix should be prod…
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I am calling variants on _C. albicans_ strains genomes using the following workflow:
Read correction with Canu (v2.0)
Minimap2 for mapping reads against the reference (v2.17)
**Variant calling (m…
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Hi,
I would like to use snpEff to annotate the variations in to synonymous non-synonymous mutations and to see the animo acid change caused by the mutations. I built the Pseudomonas phage phi-2 [(…
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I used bcftools merge --missing-to-ref to combine three vcfs with overlapping pedigrees prior to slivar analysis, but slivar aborts with thousands of errors. Is this because the allelic depths are abs…
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Hi Robert!
First, Congrats with the project! It's pretty cool!
Currently I am using vcf-annotator in another project and I've found a small glitch. I have a codon GCG in which for roughly 95% o…
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This needs to include data such as pointing to gene name info, ploidy, and ideally the option to trim sequences
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Database seems to be missing the server,
```
$ snpEff download ebola_zaire
00:00:00 ERROR while connecting to https://snpeff.blob.core.windows.net/databases/v5_0/snpEff_v5_0_ebola_zaire.z…
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```
Warning: Calling depends_on :java is deprecated! Use "depends_on "openjdk@11", "depends_on "openjdk@8" or "depends_on "openjdk" instead.
Please report this issue to the brewsci/bio tap (not Home…