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52 Open 1,094 Closed
52 Open 1,094 Closed
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Issues list

a case mistake for hgvsp with command line and web
#1847 opened Mar 10, 2025 by ArsFc
1
substr outside of string at /opt/vep/src/ensembl-vep/Bio/EnsEMBL/Variation/TranscriptVariationAllele.pm line 917
#1845 opened Feb 27, 2025 by suzyhh
@dglemos
2
Intronic insertion incorrectly assigned an exonic coordinate by VEP 113 (structural variant caller-derived)
#1842 opened Feb 19, 2025 by ajw2329
@ainefairbrother
1
VEP does not output motif features (MOTIF_NAME, MOTIF_POS, etc.)
#1840 opened Feb 18, 2025 by tuovinent
@ainefairbrother
1
Selecting sources for output produced by --domains option?
#1839 opened Feb 12, 2025 by sigven
@nakib103
2
Could not connect to database, Too many connections
#1837 opened Feb 7, 2025 by GACGAMA
@nakib103
3
Need distance to flanking upstream and downstream exons and genes
#1834 opened Jan 28, 2025 by Sanaz01
@dglemos
4
Frameshift variant missing "stop_gained" consequence (v113) future_work Changes for VEP process
#1830 opened Jan 14, 2025 by suzyhh
@olaaustine
1
T2T-CHM13v2.0 gnomAD liftover VCF should contain gnomAD ID or a way to map back to 38 coordinates
#1817 opened Dec 18, 2024 by davmlaw
@nakib103
4
shift_3prime bug bug
#1804 opened Nov 28, 2024 by fzhbioinfo
@olaaustine
2
missing novel transcript in the VEP output
#1801 opened Nov 24, 2024 by tuncayseker
@dglemos
2
Annotation fails randomly with structural variants coming from Manta
#1800 opened Nov 20, 2024 by fperezcobos
@olaaustine
8
Incorrect Annotation for Frameshift Variant in VEP 113 bug
#1796 opened Nov 19, 2024 by GSYongWu
@olaaustine
7
Homo_sapiens.GRCh38.dna.toplevel.fa.gz.fai file not updated in release 113
#1792 opened Nov 15, 2024 by rklocke
@jamie-m-a
vep can't find index file
#1791 opened Nov 14, 2024 by jerrypgreenberg
@jamie-m-a
3
Missing annotation of intergenic region, --distance doesn't help
#1790 opened Nov 13, 2024 by dshafranskaya
@jamie-m-a
MSG: The coordinate interval for display is of different length than for the reference allele
#1775 opened Oct 22, 2024 by suzyhh
@likhitha-surapaneni
8
Missing annotations for BND variants.
#1774 opened Oct 22, 2024 by ramprasadn
@likhitha-surapaneni
2
Optimize WGS VCF File Annotation for Improved Performance and Speed
#1769 opened Oct 18, 2024 by Ananya-swi
@jamie-m-a
7
How can I use my own fasta and gff to annotate?
#1768 opened Oct 15, 2024 by DayTimeMouse
@jamie-m-a
1
MSG: ERROR: No such operator "D"
#1767 opened Oct 11, 2024 by BenjaminDEMAILLE
@jamie-m-a
1
substr outside of string in VariationEffect.pm line 1329 bug
#1764 opened Oct 9, 2024 by bartgrantham
@dglemos
6
Inconsistent HGNC:ID results between single-thread and multi-thread in vep
#1759 opened Sep 26, 2024 by karlestira
@likhitha-surapaneni
6
VEP113 & VEP112 predict "inframe_insertion, stop_retained_variant" in cases where previously was predicted as "frameshift_variant, stop_gained" bug
#1710 opened Jun 27, 2024 by jperales
@olaaustine
10
From which COSMIC donwlodad file do the "Existing_variation" come?
#1691 opened Jun 5, 2024 by MGCarta
@jamie-m-a
3
ProTip! Updated in the last three days: updated:>2025-03-07.