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snpEff database command seems to ignore custom config file

Status: Open.

#619 In pcingola/SnpEff;

· pmoris opened on Jan 17, 2026

only annotate SPLICE_SITE_BRANCH

Status: Open.

#618 In pcingola/SnpEff;

· SenweiTan opened on Jan 14, 2026

Different record of Human SMAD1 gene (NM_138352.3)

Status: Open.

#617 In pcingola/SnpEff;

· SKaelthas opened on Jan 7, 2026

Possible flaw in "Cancer samples" tutorial.

Status: Open.

#616 In pcingola/SnpEff;

· marcabeer opened on Dec 17, 2025

Unsupported variant type CN0

Status: Open.

#615 In pcingola/SnpEff;

· mshpak76 opened on Nov 25, 2025

HELPER GIST: Build database using own files downloaded from Ensembl FTP (Github or Mamba version)

Status: Open.

#614 In pcingola/SnpEff;

· BilalsGituation opened on Nov 24, 2025

Transcripts not found when building database for custom genome

Status: Open.

#610 In pcingola/SnpEff;

· mrbertp opened on Oct 7, 2025

cache version 105 is not available anymore

Status: Open.

#609 In pcingola/SnpEff;

· maxulysse opened on Oct 1, 2025

How does snpEff intepret pseudogenes when building custom databases?

Status: Open.

#608 In pcingola/SnpEff;

· ajrx575 opened on Oct 1, 2025

Bacteria start codon first base deletion for GTG codon reported as Met instead of Val

Status: Open.

#605 In pcingola/SnpEff;

· mezewudo opened on Aug 28, 2025

ERROR: Database check failed.

Status: Open.

#603 In pcingola/SnpEff;

· czl101010 opened on Aug 19, 2025

FATAL ERROR: Failed to download database from [https://snpeff.blob.core.windows.net/databases/...

Status: Open.

#602 In pcingola/SnpEff;

· danphillips28 opened on Aug 18, 2025