API for WhopGenome
High-Speed Processing of VCF, FASTA and Alignment Data
| Global functions | |
|---|---|
| .onLoad | Source code |
| .vcf.action.name.to.idx | Source code |
| .vcf.column.name.to.idx | Source code |
| .vcf.comparison.name.to.idx | Source code |
| VCF_readIntoCodeMatrix | Man page Source code |
| VCF_read_snp_diplo_bial_int_altpresence | Man page Source code Source code |
| VCF_read_snp_diplo_bial_int_nuclcodes | Man page Source code |
| VCF_read_snp_diplo_bial_str_01 | Man page Source code |
| VCF_read_snp_diplo_bial_str_allelechars | Man page Source code |
| VCF_read_snp_diplo_bial_str_nuclcodes | Man page Source code |
| VCF_snpmat_anyplo_anyal_nucodes_filtered | Man page Source code |
| VCF_snpmat_anyplo_anyal_nucodes_unfiltered | Man page Source code |
| VCF_snpmat_anyplo_bial_nucodes_filtered | Man page Source code |
| VCF_snpmat_anyplo_bial_nucodes_unfiltered | Man page Source code |
| VCF_snpmat_diplo_anyal_geno_filtered | Man page Source code |
| VCF_snpmat_diplo_anyal_geno_unfiltered | Man page Source code |
| VCF_snpmat_diplo_anyal_hasalt_filtered | Man page Source code |
| VCF_snpmat_diplo_anyal_hasalt_unfiltered | Man page Source code |
| VCF_snpmat_diplo_anyal_ishet_filtered | Man page Source code |
| VCF_snpmat_diplo_anyal_ishet_unfiltered | Man page Source code |
| VCF_snpmat_diplo_anyal_nucodes_filtered | Man page Source code |
| VCF_snpmat_diplo_anyal_nucodes_unfiltered | Man page Source code |
| VCF_snpmat_diplo_bial_geno_filtered | Man page Man page Source code |
| VCF_snpmat_diplo_bial_geno_unfiltered | Man page Source code |
| VCF_snpmat_diplo_bial_hasalt_filtered | Man page Source code |
| VCF_snpmat_diplo_bial_hasalt_unfiltered | Man page Source code |
| VCF_snpmat_diplo_bial_ishet_filtered | Man page Source code |
| VCF_snpmat_diplo_bial_ishet_unfiltered | Man page Source code |
| VCF_snpmat_diplo_bial_nucodes_filtered | Man page Source code |
| VCF_snpmat_diplo_bial_nucodes_unfiltered | Man page Source code |
| WhopGenome | Man page |
| WhopGenome-package | Man page |
| bgzf_compress | Man page Source code |
| fai_build | Man page Source code |
| fai_close | Man page Source code |
| fai_open | Man page Source code |
| fai_query2 | Man page Source code |
| fai_query3 | Man page Source code |
| fai_query4 | Man page Source code |
| fai_query5 | Man page Source code |
| fai_reopen | Man page Source code |
| read_snp_diplo_bial_int_altpresence | Man page Source code |
| read_snp_diplo_bial_int_nuclcodes | Man page Source code |
| read_snp_diplo_bial_str_01 | Man page Source code |
| read_snp_diplo_bial_str_allelechars | Man page Source code |
| read_snp_diplo_bial_str_nuclcodes | Man page Source code |
| tabix_build | Man page Source code |
| tabix_close | Man page Source code |
| tabix_getregion | Man page Source code |
| tabix_open | Man page Source code |
| tabix_read | Man page Source code |
| tabix_readraw | Man page Source code |
| tabix_reopen | Man page Source code |
| tabix_restartregion | Man page Source code |
| tabix_setregion | Man page Source code |
| vcf_addfilter | Man page Source code |
| vcf_buildindex | Man page Source code |
| vcf_clearfilters | Man page Source code |
| vcf_close | Man page Source code |
| vcf_countBiallelicSNPs | Man page Source code |
| vcf_countSNPs | Man page Source code |
| vcf_describefilters | Man page Source code |
| vcf_eor | Man page Source code |
| vcf_getAlt | Man page Source code |
| vcf_getChrom | Man page Source code |
| vcf_getFilter | Man page Source code |
| vcf_getFormat | Man page Source code |
| vcf_getID | Man page Source code |
| vcf_getInfo | Man page Source code |
| vcf_getInfoField | Man page Source code |
| vcf_getPos | Man page Source code |
| vcf_getQual | Man page Source code |
| vcf_getRef | Man page Source code |
| vcf_getSample | Man page Source code |
| vcf_getcontignames | Man page Source code |
| vcf_getfieldnames | Man page Source code |
| vcf_getheaderline | Man page Source code |
| vcf_getnumcontigs | Man page Source code |
| vcf_getregion | Man page Source code |
| vcf_getsamples | Man page Source code |
| vcf_getselectedsamples | Man page Source code |
| vcf_isINDEL | Man page Source code |
| vcf_isSNP | Man page Source code |
| vcf_open | Man page Source code |
| vcf_parseNextLine | Man page Source code |
| vcf_parseNextSNP | Man page Source code |
| vcf_readLineDF | Man page Source code |
| vcf_readLineDFFiltered | Source code |
| vcf_readLineRaw | Man page Source code |
| vcf_readLineRawFiltered | Man page Source code |
| vcf_readLineVec | Man page Source code |
| vcf_readLineVecFiltered | Man page Source code |
| vcf_reopen | Man page Source code |
| vcf_restartregion | Man page Source code |
| vcf_rule.disable | Man page Source code |
| vcf_rule.enable | Man page Source code |
| vcf_rule.setaction | Man page Source code |
| vcf_rule.setcolumn | Man page Source code |
| vcf_rule.setcomparison | Man page Source code |
| vcf_rule.setfield | Man page Source code |
| vcf_rule.setrefvalues | Man page Source code |
| vcf_selectsamples | Man page Source code |
| vcf_setregion | Man page Source code |
| vcf_valid | Man page Source code |
| whop.eg.Organism | Man page Source code |
| whop.eg.abbrevForOrganism | Man page Source code |
| whop.eg.chromosome | Man page Source code |
| whop.eg.eg_RevLookup | Man page Source code |
| whop.eg.eg_lookup | Man page Source code |
| whop.eg.eg_lookupAll | Man page Source code |
| whop.eg.eg_lookupSingle | Man page Source code |
| whop.eg.enzyme | Man page Source code |
| whop.eg.fromAccnum | Man page Source code |
| whop.eg.fromAlias | Man page Source code |
| whop.eg.fromEnsembl | Man page Source code |
| whop.eg.fromEnsemblProt | Man page Source code |
| whop.eg.fromEnsemblTrans | Man page Source code |
| whop.eg.fromEnzyme | Man page Source code |
| whop.eg.fromGO | Man page Source code |
| whop.eg.fromGO2AllEgs | Man page Source code |
| whop.eg.fromOmim | Man page Source code |
| whop.eg.fromPath | Man page Source code |
| whop.eg.fromPmid | Man page Source code |
| whop.eg.fromRefseq | Man page Source code |
| whop.eg.fromUnigene | Man page Source code |
| whop.eg.fromUniprot | Man page Source code |
| whop.eg.genename | Man page Source code |
| whop.eg.goIds | Man page Source code |
| whop.eg.installdb | Man page Source code |
| whop.eg.keggpathways | Man page Source code |
| whop.eg.load_orgdb | Man page Source code |
| whop.eg.orgdb_loaded | Man page Source code |
| whop.eg.region | Man page Source code |
| whop.eg.selectOrganism | Man page Source code |
| whop.eg.toAccnum | Man page Source code Source code |
| whop.eg.toAlias | Man page Source code |
| whop.eg.toEnsembl | Man page Source code |
| whop.eg.toEnsemblProt | Man page Source code |
| whop.eg.toEnsemblTrans | Man page Source code |
| whop.eg.toEnzyme | Man page Source code |
| whop.eg.toGO | Man page Source code |
| whop.eg.toOmim | Man page Source code |
| whop.eg.toPath | Man page Source code |
| whop.eg.toPmid | Man page Source code |
| whop.eg.toRefseq | Man page Source code |
| whop.eg.toUnigene | Man page Source code |
| whop.eg.toUniprot | Man page Source code |
| whop.go.all_genes_for_term | Man page Source code |
| whop.go.connect | Man page Source code |
| whop.go.goid_like | Man page Source code |
| whop.go.is_obsolete_byid | Man page Source code |
| whop.go.is_obsolete_byname | Man page Source code |
| whop.go.load | Man page Source code |
| whop.go.match | Man page Source code |
| whop.go.term_ancestors | Man page Source code |
| whop.go.term_ancestors_similar | Man page Source code |
| whop.go.term_children | Man page Source code |
| whop.go.term_synonyms | Man page Source code |
| whop.go.terms_match | Man page Source code |
| whop.kegg.pathway_url | Man page Source code |
| whop.ped.daughtersOf | Man page Source code |
| whop.ped.entriesOf | Man page Source code |
| whop.ped.familyOf | Man page Source code |
| whop.ped.fathers | Man page Source code |
| whop.ped.females | Man page Source code |
| whop.ped.fromPop | Man page Source code |
| whop.ped.load | Man page Source code |
| whop.ped.males | Man page Source code |
| whop.ped.mothers | Man page Source code |
| whop.ped.names | Man page Source code |
| whop.ped.parentsOf | Man page Source code |
| whop.ped.save | Man page Source code |
| whop.ped.siblingsOf | Man page Source code |
| whop.ped.sonsOf | Man page Source code |
| whop.ucsc.geneInfo | Man page Source code |
| whop.ucsc.geneInfoSimilar | Man page Source code |
| whop.ucsc.genesForRegion | Man page Source code |
| whop.ucsc.query | Man page Source code |
