BSgenome
Software infrastructure for efficient representation of full genomes and their SNPs

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BSgenome: Software infrastructure for efficient representation of full genomes and their SNPs
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Files in BSgenome
Software infrastructure for efficient representation of full genomes and their SNPs

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README.md
NEWS
NAMESPACE
DESCRIPTION
build/vignette.rds
R/export-methods.R R/extractAt-methods.R R/ODLT_SNPlocs-class.R R/BSgenome-class.R R/BSgenomeViews-class.R R/utils.R R/XtraSNPlocs-class.R R/SNPlocs-class.R R/injectSNPs.R R/available.genomes.R R/OnDiskLongTable-class.R R/InjectSNPsHandler-class.R R/BSgenome-utils.R R/OldFashionSNPlocs-class.R R/bsapply.R R/BSgenomeForge.R R/getSeq-methods.R R/OnDiskLongTable_old-class.R R/OnDiskNamedSequences-class.R
vignettes/GenomeSearching.Rnw
vignettes/BSgenomeForge.Rnw
man/BSgenomeViews-class.Rd man/export-methods.Rd man/XtraSNPlocs-class.Rd man/BSgenomeForge.Rd man/available.genomes.Rd man/BSParams-class.Rd man/BSgenome-utils.Rd man/SNPlocs-class.Rd man/injectSNPs.Rd man/BSgenome-class.Rd man/bsapply.Rd man/getSeq-methods.Rd inst/doc/GenomeSearching.R
inst/doc/GenomeSearching.Rnw
inst/doc/BSgenomeForge.pdf inst/doc/GenomeSearching.pdf inst/doc/BSgenomeForge.R
inst/doc/BSgenomeForge.Rnw
inst/extdata/ce2dict0.fa
inst/extdata/ce2chrM.fa.gz
inst/extdata/ce2chrX.fa.gz
inst/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal5-seed
inst/extdata/GentlemanLab/BSgenome.Sscrofa.UCSC.susScr3-seed
inst/extdata/GentlemanLab/BSgenome.Ppaniscus.UCSC.panPan1-seed
inst/extdata/GentlemanLab/BSgenome.Rnorvegicus.UCSC.rn5.masked-seed
inst/extdata/GentlemanLab/BSgenome.Gaculeatus.UCSC.gasAcu1-seed
inst/extdata/GentlemanLab/BSgenome.Cfamiliaris.UCSC.canFam2.masked-seed
inst/extdata/GentlemanLab/bump_seed_version.sh
inst/extdata/GentlemanLab/BSgenome.influenza.NCBI.20100628-seed
inst/extdata/GentlemanLab/BSgenome.Hsapiens.UCSC.hg17.masked-seed
inst/extdata/GentlemanLab/BSgenome.Tguttata.UCSC.taeGut1-seed
inst/extdata/GentlemanLab/BSgenome.Hsapiens.UCSC.hg17-seed
inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau6-seed
inst/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal3.masked-seed
inst/extdata/GentlemanLab/BSgenome.Mmusculus.UCSC.mm9-seed
inst/extdata/GentlemanLab/BSgenome.Hsapiens.UCSC.hg38-seed
inst/extdata/GentlemanLab/BSgenome.Mdomestica.UCSC.monDom5-seed
inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau6.masked-seed
inst/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro3.masked-seed
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer6.masked-seed
inst/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro6-seed
inst/extdata/GentlemanLab/BSgenome.Hsapiens.UCSC.hg18-seed
inst/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal4-seed
inst/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro2-seed
inst/extdata/GentlemanLab/BSgenome.Amellifera.UCSC.apiMel2-seed
inst/extdata/GentlemanLab/BSgenome.Dmelanogaster.UCSC.dm6-seed
inst/extdata/GentlemanLab/BSgenome.Tguttata.UCSC.taeGut1.masked-seed
inst/extdata/GentlemanLab/BSgenome.Cfamiliaris.UCSC.canFam3.masked-seed
inst/extdata/GentlemanLab/BSgenome.Hsapiens.UCSC.hg18.masked-seed
inst/extdata/GentlemanLab/ForgeAll.R
inst/extdata/GentlemanLab/BSgenome.Celegans.UCSC.ce10-seed
inst/extdata/GentlemanLab/BSgenome.Rnorvegicus.UCSC.rn4-seed
inst/extdata/GentlemanLab/BSgenome.Mmusculus.UCSC.mm10-seed
inst/extdata/GentlemanLab/BSgenome.Cfamiliaris.UCSC.canFam3-seed
inst/extdata/GentlemanLab/BSgenome.Dmelanogaster.UCSC.dm3.masked-seed
inst/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac10-seed
inst/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal6-seed
inst/extdata/GentlemanLab/BSgenome.Scerevisiae.UCSC.sacCer2-seed
inst/extdata/GentlemanLab/BSgenome.Mmusculus.UCSC.mm9.masked-seed
inst/extdata/GentlemanLab/BSgenome.Celegans.UCSC.ce2-seed
inst/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac8-seed
inst/extdata/GentlemanLab/BSgenome.Celegans.UCSC.ce11-seed
inst/extdata/GentlemanLab/BSgenome.Dmelanogaster.UCSC.dm3-seed
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer7-seed
inst/extdata/GentlemanLab/BSgenome.Scerevisiae.UCSC.sacCer1-seed
inst/extdata/GentlemanLab/BSgenome.Hsapiens.UCSC.hg38.masked-seed
inst/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac3.masked-seed
inst/extdata/GentlemanLab/BSgenome.Amellifera.BeeBase.assembly4-seed
inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau4-seed
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer5-seed
inst/extdata/GentlemanLab/BSgenome.Cjacchus.UCSC.calJac3-seed
inst/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal3-seed
inst/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR9-seed
inst/extdata/GentlemanLab/BSgenome.Ecoli.NCBI.20080805-seed
inst/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal4.masked-seed
inst/extdata/GentlemanLab/BSgenome.Dvirilis.Ensembl.dvircaf1-seed
inst/extdata/GentlemanLab/BSgenome.Mfuro.UCSC.musFur1-seed
inst/extdata/GentlemanLab/BSgenome.Rnorvegicus.UCSC.rn6-seed
inst/extdata/GentlemanLab/BSgenome.Celegans.UCSC.ce6-seed
inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau3.masked-seed
inst/extdata/GentlemanLab/BSgenome.Sscrofa.UCSC.susScr11-seed
inst/extdata/GentlemanLab/BSgenome.Mmusculus.UCSC.mm10.masked-seed
inst/extdata/GentlemanLab/BSgenome.Ppaniscus.UCSC.panPan2-seed
inst/extdata/GentlemanLab/BSgenome.Cfamiliaris.UCSC.canFam2-seed
inst/extdata/GentlemanLab/BSgenome.Rnorvegicus.UCSC.rn5-seed
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer7.masked-seed
inst/extdata/GentlemanLab/BSgenome.Tguttata.UCSC.taeGut2-seed
inst/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro2.masked-seed
inst/extdata/GentlemanLab/BSgenome.Mfascicularis.NCBI.5.0-seed
inst/extdata/GentlemanLab/BSgenome.Dmelanogaster.UCSC.dm2-seed
inst/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.04232008-seed
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer10-seed
inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau3-seed
inst/extdata/GentlemanLab/BSgenome.Mmusculus.UCSC.mm8.masked-seed
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer5.masked-seed
inst/extdata/GentlemanLab/BSgenome.Gmellonella.NCBI.ASM364042v2-seed
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer6-seed
inst/extdata/GentlemanLab/BSgenome.Mmusculus.UCSC.mm8-seed
inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau4.masked-seed
inst/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro3-seed
inst/extdata/GentlemanLab/BSgenome.Gaculeatus.UCSC.gasAcu1.masked-seed
inst/extdata/GentlemanLab/BSgenome.Hsapiens.UCSC.hg19.masked-seed
inst/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro5-seed
inst/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR10.1-seed
inst/extdata/GentlemanLab/BSgenome.Hsapiens.NCBI.GRCh38-seed
inst/extdata/GentlemanLab/BSgenome.Amellifera.UCSC.apiMel2.masked-seed
inst/extdata/GentlemanLab/BSgenome.Hsapiens.UCSC.hg19-seed
inst/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac3-seed
inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau9-seed
inst/extdata/GentlemanLab/BSgenome.Rnorvegicus.UCSC.rn4.masked-seed
inst/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac2.masked-seed
inst/extdata/GentlemanLab/BSgenome.Dmelanogaster.UCSC.dm2.masked-seed
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer11-seed
inst/extdata/GentlemanLab/BSgenome.Scerevisiae.UCSC.sacCer3-seed
inst/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac2-seed
inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau8-seed
inst/extdata/GentlemanLab/BSgenome.Sscrofa.UCSC.susScr3.masked-seed
inst/extdata/GentlemanLab/BSgenome.Mdomestica.UCSC.monDom5-tools/sort_monDom5.2bit.R inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau6-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Cfamiliaris.UCSC.canFam3-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer10-tools/sort_danRer10.2bit.R inst/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal4-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro5-tools/sort_panTro5.2bit.R inst/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR10.1-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro6-tools/sort_panTro6.2bit.R inst/extdata/GentlemanLab/BSgenome.Hsapiens.NCBI.GRCh38-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Sscrofa.UCSC.susScr3-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal6-tools/sort_galGal6.2bit.R
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer7-tools/NOTES.TXT
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer7-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Rnorvegicus.UCSC.rn5-tools/splitbigfasta.R
inst/extdata/GentlemanLab/BSgenome.Athaliana.TAIR.TAIR9-tools/NOTES.TXT
inst/extdata/GentlemanLab/BSgenome.Sscrofa.UCSC.susScr11-tools/sort_susScr11.2bit.R inst/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac3-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Tguttata.UCSC.taeGut2-tools/sort_taeGut2.2bit.R
inst/extdata/GentlemanLab/BSgenome.Amellifera.BeeBase.assembly4-tools/splitbigfasta.sh
inst/extdata/GentlemanLab/BSgenome.Amellifera.BeeBase.assembly4-tools/NOTES.TXT
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer6-tools/NOTES.TXT
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer6-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Mfascicularis.NCBI.5.0-tools/fasta_to_sorted2bit.R inst/extdata/GentlemanLab/BSgenome.Gmellonella.NCBI.ASM364042v2-tools/fasta_to_sorted_2bit.R inst/extdata/GentlemanLab/BSgenome.Cjacchus.UCSC.calJac3-tools/sort_calJac3.2bit.R inst/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac10-tools/sort_rheMac10.2bit.R
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer5-tools/splitbigfasta.sh
inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer5-tools/NOTES.TXT
inst/extdata/GentlemanLab/BSgenome.Ggallus.UCSC.galGal5-tools/sort_galGal5.2bit.R inst/extdata/GentlemanLab/BSgenome.Drerio.UCSC.danRer11-tools/sort_danRer11.2bit.R inst/extdata/GentlemanLab/BSgenome.Mmulatta.UCSC.rheMac8-tools/sort_rheMac8.2bit.R inst/extdata/GentlemanLab/BSgenome.Ptroglodytes.UCSC.panTro3-tools/splitbigfasta.R inst/extdata/GentlemanLab/BSgenome.Btaurus.UCSC.bosTau9-tools/sort_bosTau9.2bit.R
inst/pkgtemplates/BSgenome_datapkg/NAMESPACE
inst/pkgtemplates/BSgenome_datapkg/DESCRIPTION
inst/pkgtemplates/BSgenome_datapkg/R/zzz.R
inst/pkgtemplates/BSgenome_datapkg/man/package.Rd
inst/pkgtemplates/MaskedBSgenome_datapkg/NAMESPACE
inst/pkgtemplates/MaskedBSgenome_datapkg/DESCRIPTION
inst/pkgtemplates/MaskedBSgenome_datapkg/R/zzz.R
inst/pkgtemplates/MaskedBSgenome_datapkg/man/package.Rd
BSgenome documentation built on Nov. 8, 2020, 7:48 p.m.

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