├── .hgignore ├── AVADA.pm ├── AlphaMissense.pm ├── AncestralAllele.pm ├── BayesDel.pm ├── Blosum62.pm ├── CADD.pm ├── CAPICE.pm ├── CCDSFilter.pm ├── CONTRIBUTING.md ├── CSN.pm ├── Carol.pm ├── ClinPred.pm ├── Condel.pm ├── Conservation.pm ├── DAS.pm ├── DeNovo.pm ├── DosageSensitivity.pm ├── Downstream.pm ├── Draw.pm ├── EVE.pm ├── Enformer.pm ├── FATHMM.pm ├── FATHMM_MKL.pm ├── FlagLRG.pm ├── FunMotifs.pm ├── G2P.pm ├── GO.pm ├── GWAS.pm ├── GXA.pm ├── GeneBe.pm ├── GeneSplicer.pm ├── Geno2MP.pm ├── HGVSIntronOffset.pm ├── HGVSReferenceBase.pm ├── IntAct.pm ├── LD.pm ├── LICENSE ├── LOEUF.pm ├── LOVD.pm ├── LoFtool.pm ├── LoFtool_scores.txt ├── LocalID.pm ├── MPC.pm ├── MTR.pm ├── Mastermind.pm ├── MaveDB.pm ├── MaxEntScan.pm ├── MechPredict.pm ├── NMD.pm ├── NearestExonJB.pm ├── NearestGene.pm ├── NonSynonymousFilter.pm ├── OpenTargets.pm ├── PON_P2.pm ├── Paralogues.pm ├── PhenotypeOrthologous.pm ├── Phenotypes.pm ├── PolyPhen_SIFT.pm ├── PostGAP.pm ├── PrimateAI.pm ├── ProteinSeqs.pm ├── README ├── README.md ├── REVEL.pm ├── RankFilter.pm ├── RefSeqHGVS.pm ├── ReferenceQuality.pm ├── RiboseqORFs.pm ├── SameCodon.pm ├── SingleLetterAA.pm ├── SpliceAI.pm ├── SpliceRegion.pm ├── SpliceVault.pm ├── StructuralVariantOverlap.pm ├── SubsetVCF.pm ├── TSSDistance.pm ├── TranscriptAnnotator.pm ├── UTRAnnotator.pm ├── VARITY.pm ├── config ├── Condel │ ├── config │ │ └── condel_SP.conf │ └── methdist │ │ ├── polyphen.data │ │ ├── sift.data │ │ └── test_condel_SP.data ├── cpanfile ├── requirements.txt └── ubuntu-packages.txt ├── dbNSFP.pm ├── dbNSFP_replacement_logic ├── dbscSNV.pm ├── gnomADc.pm ├── mutfunc.pm ├── neXtProt.pm ├── neXtProt_headers.txt ├── pLI.pm ├── pLI_values.txt ├── plugin_config.txt └── satMutMPRA.pm /.hgignore: -------------------------------------------------------------------------------- 1 | syntax: glob 2 | *~ 3 | -------------------------------------------------------------------------------- /AVADA.pm: 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