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Issues list

Loss of END_TRUNC in GRCh38 vs GRCh37 due to change in GERP cutoff from +180 to -58
#105 opened Apr 25, 2024 by daniel-wells
doesn't annotate certain LoF suspected variants?
#104 opened Apr 12, 2024 by dtomi0223
vep plugin doesnt tag lof variants
#103 opened Oct 20, 2023 by roofya
1
MSG: Slice start cannot be greater than slice end
#102 opened Aug 19, 2023 by xx3411
[faidx] Zero length sequence:
#101 opened Jul 10, 2023 by jon4thin
Can't exec "samtools"
#98 opened Jun 9, 2023 by jxcao98
1
In --tab output format, "PHYLOCSF_TOO_SHORT" shows up in the LoF_info column instead of the LoF_flags column
#97 opened Mar 23, 2023 by dvg-p4
Suggested GERP bigwig download path is very slow and possibly out-of-date
#96 opened Mar 20, 2023 by dvg-p4
GERP bigwig file location not concatenated properly
#95 opened Mar 20, 2023 by dvg-p4
4
WARNING: Plugin 'LoF' went wrong: Can't locate object method "prepare" via package "false" (perhaps you forgot to load "false"?)
#94 opened Feb 21, 2023 by xx3411
3
Loftee VEP plugin creates incorrectly formatted VCFs
#93 opened Feb 9, 2023 by pd3
Error: lib/Bio/DB/BigFile.c: loadable library and perl binaries are mismatched (got handshake key 0xed00080, needed 0xeb00080)
#90 opened Jan 27, 2023 by sahwa
No splice site and ancestral allele annotations
#87 opened Mar 7, 2022 by Filago4
Merge hg38 branch to master?
#84 opened Oct 21, 2021 by Hoeze
6
Option gerp_file undocumented
#83 opened Oct 5, 2021 by aheinzel
Use of the option conservation_file mandatory?
#82 opened Oct 5, 2021 by aheinzel
Can loftee apply to other primate species?
#81 opened Sep 30, 2021 by KizBaolin
Loftee results in the ensemble rest api
#80 opened Jul 11, 2021 by davidjohngreen
PhyloCSF database
#79 opened May 7, 2021 by yinhongwei4079
conservation_file
#78 opened Apr 22, 2021 by yinhongwei4079
Failed to instantiate plugin LoF: Cannot read /vep/loftee/GERP_scores.final.sorted.txt.gz
#75 opened Jan 13, 2021 by jielab
Can't locate object method "prepare" via package "false"
#73 opened Nov 24, 2020 by olszewskip
10
Failed to compile plugin LoF:Illegal divisions by zero
#72 opened Nov 24, 2020 by seunghun23
6
WARNING: Failed to compile plugin LoF: can't open!
#69 opened Aug 20, 2020 by JIBINJOHNV
11
WARNING: Failed to compile plugin LoF: Attempt to reload Bio/DB/BigFile.pm aborted.
#67 opened Jun 16, 2020 by BGI-hys
2
ProTip! What’s not been updated in a month: updated:<2024-04-07.