Releases: Ensembl/ensembl-vep
Releases · Ensembl/ensembl-vep
release/96.3
Fix VEP process issue when the alleles from an input variant are the same (i.e. REF = ALT)
release/96.2
Haplosaurus - fix comparison for non numeric chromosomes
release/96.1
Haplosaurus - fix interpretation issue when following entries have similar coordinates but on different chromosomes in the input file
release/96.0
- Add SPDI format for VEP (input) and Variant Recoder (input and output)
- Update VEP cache with gnomAD 2.1 (human)
- Update the Docker VEP base image to Ubuntu 18.04
- Retire deprecated flags: --gmaf, --maf_1kg, --maf_esp, --maf_exac, --check_alleles, --html, --gvf
- Retire legacy code about the pileup input format, which is no longer supported
- Deprecate the installation flag "--VERSION"
- Force numbers to be encoded as numbers in JSON output
release/95.3
Fix to ignore the empty MotifFeatures from the VEP cache
release/95.2
Fix the installation script issue when an older version of VEP is specified with the flag '--VERSION'
release/95.1
Add the Perl library Text::CSV
in the cpanfile (required for the G2P VEP plugin)
release/95.0
- The VEP parser is now more permissive for the GFF files (ID attribute only required for genes and transcripts)
- Add new option --show_ref_allele to include the allele reference in the VEP default output and the tab output formats
- Add a warning message when the VEP annotations INFO field hasn't been found/recognised in the VCF input file
- VEP Docker image:
- Reduce the size of the VEP Docker image by about 45%.
- Include the Linkage disequilibrium script in the VEP Docker image, making possible to run the LD plugin
release/94.5
Fix issue to fetch some gene names from external sources
release/94.4
Minor fix: remove warning message about an uninitialised value in 'if' condition