Files in domingoscardoso/catGenes
Concatenating multiple DNA alignments and other phylogenetic features
.DS_Store
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
R/.DS_Store
R/abbrevGen.R
R/alignSeqs.R
R/auxiliary_functions.R
R/catGenes-package.R
R/catfullGenes.R
R/catmultGenes.R
R/convertAlign.R
R/data.R
R/defensive_functions.R
R/delGaps.R
R/dropSeq.R
R/fastadframe.R
R/genecomp.R
R/genecompmult.R
R/globals.R
R/mineMitochondrion.R
R/minePlastome.R
R/mineSeq.R
R/nexusdframe.R
R/phylipdframe.R
R/plotPhylo.R
R/run_catGenes.R
R/splitTips.R
R/writeNexus.R
R/writePhylip.R
README.Rmd
README.md
catGenes.Rproj
data-raw/.DS_Store
data-raw/DATASET.R
data-raw/DNAlignments/.DS_Store
data-raw/DNAlignments/Brongniartia/ETS.nex
data-raw/DNAlignments/Brongniartia/ITS.nex
data-raw/DNAlignments/Brongniartia/matK.nex
data-raw/DNAlignments/Brongniartia/trnLF.nex
data-raw/DNAlignments/Cryptocarya/ITS.nex
data-raw/DNAlignments/Cryptocarya/matK.nex
data-raw/DNAlignments/Cryptocarya/psbA.nex
data-raw/DNAlignments/Cryptocarya/rbcL.nex
data-raw/DNAlignments/Gaya/ITS.nex
data-raw/DNAlignments/Gaya/petLpsbE.nex
data-raw/DNAlignments/Gaya/rpL16.nex
data-raw/DNAlignments/Luetzelburgia/Luetz_ETS.nex
data-raw/DNAlignments/Luetzelburgia/Luetz_ITS.nex
data-raw/DNAlignments/Luetzelburgia/Luetz_matK.nex
data-raw/DNAlignments/Luetzelburgia/Luetz_psbAtrnH.nex
data-raw/DNAlignments/Luetzelburgia/Luetz_rpS16.nex
data-raw/DNAlignments/Luetzelburgia/Luetz_trnDT.nex
data-raw/DNAlignments/Luetzelburgia/Luetz_trnK.nex
data-raw/DNAlignments/Luetzelburgia/Luetz_trnL.nex
data-raw/DNAlignments/Luetzelburgia/Luetz_trnQ.nex
data-raw/DNAlignments/Ormosia/Ormosia_ITS.nex
data-raw/DNAlignments/Ormosia/Ormosia_matK.nex
data-raw/DNAlignments/Ormosia/Ormosia_trnKintron.nex
data-raw/DNAlignments/Ormosia/Ormosia_trnLF.nex
data-raw/DNAlignments/Vataireoids/ETS.nex
data-raw/DNAlignments/Vataireoids/ITS.nex
data-raw/DNAlignments/Vataireoids/matK.nex
data-raw/DNAlignments/Vataireoids/psbAtrnH.nex
data-raw/DNAlignments/Vataireoids/rpS16.nex
data-raw/DNAlignments/Vataireoids/trnDT.nex
data-raw/DNAlignments/Vataireoids/trnL.nex
data-raw/DNAlignments/Vataireoids/trnQ.nex
data-raw/DNAlignments/Vochysiaceae/accD.nex
data-raw/DNAlignments/Vochysiaceae/atpA.nex
data-raw/DNAlignments/Vochysiaceae/atpB.nex
data-raw/DNAlignments/Vochysiaceae/atpE.nex
data-raw/DNAlignments/Vochysiaceae/atpF.nex
data-raw/DNAlignments/Vochysiaceae/atpH.nex
data-raw/DNAlignments/Vochysiaceae/atpI.nex
data-raw/DNAlignments/Vochysiaceae/ccsA.nex
data-raw/DNAlignments/Vochysiaceae/cemA.nex
data-raw/DNAlignments/Vochysiaceae/clpP.nex
data-raw/DNAlignments/Vochysiaceae/matK.nex
data-raw/DNAlignments/Vochysiaceae/ndhA.nex
data-raw/DNAlignments/Vochysiaceae/ndhB.nex
data-raw/DNAlignments/Vochysiaceae/ndhC.nex
data-raw/DNAlignments/Vochysiaceae/ndhD.nex
data-raw/DNAlignments/Vochysiaceae/ndhE.nex
data-raw/DNAlignments/Vochysiaceae/ndhF.nex
data-raw/DNAlignments/Vochysiaceae/ndhG.nex
data-raw/DNAlignments/Vochysiaceae/ndhH.nex
data-raw/DNAlignments/Vochysiaceae/ndhI.nex
data-raw/DNAlignments/Vochysiaceae/ndhJ.nex
data-raw/DNAlignments/Vochysiaceae/ndhK.nex
data-raw/DNAlignments/Vochysiaceae/petA.nex
data-raw/DNAlignments/Vochysiaceae/petB.nex
data-raw/DNAlignments/Vochysiaceae/petD.nex
data-raw/DNAlignments/Vochysiaceae/petG.nex
data-raw/DNAlignments/Vochysiaceae/petL.nex
data-raw/DNAlignments/Vochysiaceae/petN.nex
data-raw/DNAlignments/Vochysiaceae/psaA.nex
data-raw/DNAlignments/Vochysiaceae/psaB.nex
data-raw/DNAlignments/Vochysiaceae/psaC.nex
data-raw/DNAlignments/Vochysiaceae/psaI.nex
data-raw/DNAlignments/Vochysiaceae/psaJ.nex
data-raw/DNAlignments/Vochysiaceae/psbA.nex
data-raw/DNAlignments/Vochysiaceae/psbB.nex
data-raw/DNAlignments/Vochysiaceae/psbC.nex
data-raw/DNAlignments/Vochysiaceae/psbD.nex
data-raw/DNAlignments/Vochysiaceae/psbE.nex
data-raw/DNAlignments/Vochysiaceae/psbF.nex
data-raw/DNAlignments/Vochysiaceae/psbH.nex
data-raw/DNAlignments/Vochysiaceae/psbI.nex
data-raw/DNAlignments/Vochysiaceae/psbJ.nex
data-raw/DNAlignments/Vochysiaceae/psbK.nex
data-raw/DNAlignments/Vochysiaceae/psbL.nex
data-raw/DNAlignments/Vochysiaceae/psbM.nex
data-raw/DNAlignments/Vochysiaceae/psbN.nex
data-raw/DNAlignments/Vochysiaceae/psbT.nex
data-raw/DNAlignments/Vochysiaceae/psbZ.nex
data-raw/DNAlignments/Vochysiaceae/rbcL.nex
data-raw/DNAlignments/Vochysiaceae/rpl14.nex
data-raw/DNAlignments/Vochysiaceae/rpl16.nex
data-raw/DNAlignments/Vochysiaceae/rpl2.nex
data-raw/DNAlignments/Vochysiaceae/rpl20.nex
data-raw/DNAlignments/Vochysiaceae/rpl22.nex
data-raw/DNAlignments/Vochysiaceae/rpl23.nex
data-raw/DNAlignments/Vochysiaceae/rpl32.nex
data-raw/DNAlignments/Vochysiaceae/rpl33.nex
data-raw/DNAlignments/Vochysiaceae/rpl36.nex
data-raw/DNAlignments/Vochysiaceae/rpoA.nex
data-raw/DNAlignments/Vochysiaceae/rpoB.nex
data-raw/DNAlignments/Vochysiaceae/rpoC1.nex
data-raw/DNAlignments/Vochysiaceae/rpoC2.nex
data-raw/DNAlignments/Vochysiaceae/rps11.nex
data-raw/DNAlignments/Vochysiaceae/rps12.nex
data-raw/DNAlignments/Vochysiaceae/rps14.nex
data-raw/DNAlignments/Vochysiaceae/rps15.nex
data-raw/DNAlignments/Vochysiaceae/rps16.nex
data-raw/DNAlignments/Vochysiaceae/rps18.nex
data-raw/DNAlignments/Vochysiaceae/rps19.nex
data-raw/DNAlignments/Vochysiaceae/rps2.nex
data-raw/DNAlignments/Vochysiaceae/rps3.nex
data-raw/DNAlignments/Vochysiaceae/rps4.nex
data-raw/DNAlignments/Vochysiaceae/rps7.nex
data-raw/DNAlignments/Vochysiaceae/rps8.nex
data-raw/DNAlignments/Vochysiaceae/ycf1.nex
data-raw/DNAlignments/Vochysiaceae/ycf2.nex
data-raw/DNAlignments/Vochysiaceae/ycf3.nex
data-raw/DNAlignments/Vochysiaceae/ycf4.nex
data-raw/Spreadsheet/GenBank_accessions_Randia_clade_RUBIACEAE.xlsx
data-raw/Trees/.DS_Store
data-raw/Trees/Harpalyce_Bayes_ITS_ETS_matK_trnL.tree
data-raw/Trees/Harpalyce_RAxML_ITS_ETS_matK_trnL.tree
data-raw/Trees/Harpalyce_parsimony_ITS_ETS_matK_trnL.tree
data/Brongniartia.rda
data/Cryptocarya.rda
data/Gaya.rda
data/GenBank_accessions.rda
data/Harpalyce_bayes_tree.rda
data/Harpalyce_parsimony_tree.rda
data/Harpalyce_raxml_tree.rda
data/Luetzelburgia.rda
data/Ormosia.rda
data/Vataireoids.rda
data/Vochysiaceae.rda
inst/.DS_Store
inst/DNAlignments/.DS_Store
inst/DNAlignments/Brongniartia/ETS.nex
inst/DNAlignments/Brongniartia/ITS.nex
inst/DNAlignments/Brongniartia/matK.nex
inst/DNAlignments/Brongniartia/trnLF.nex
inst/DNAlignments/Gaya/ITS.nex
inst/DNAlignments/Gaya/petLpsbE.nex
inst/DNAlignments/Gaya/rpl16.nex
inst/DNAlignments/Luetzelburgia/Luetz_ETS.nex
inst/DNAlignments/Luetzelburgia/Luetz_ITS.nex
inst/DNAlignments/Luetzelburgia/Luetz_matK.nex
inst/DNAlignments/Luetzelburgia/Luetz_psbAtrnH.nex
inst/DNAlignments/Luetzelburgia/Luetz_rps16.nex
inst/DNAlignments/Luetzelburgia/Luetz_trnDT.nex
inst/DNAlignments/Luetzelburgia/Luetz_trnK.nex
inst/DNAlignments/Luetzelburgia/Luetz_trnL.nex
inst/DNAlignments/Luetzelburgia/Luetz_trnQ.nex
inst/DNAlignments/Ormosia/Ormosia_ITS.nex
inst/DNAlignments/Ormosia/Ormosia_matK.nex
inst/DNAlignments/Ormosia/Ormosia_trnKintron.nex
inst/DNAlignments/Ormosia/Ormosia_trnLF.nex
inst/DNAlignments/Vataireoids/ETS.nex
inst/DNAlignments/Vataireoids/ITS.nex
inst/DNAlignments/Vataireoids/matK.nex
inst/DNAlignments/Vataireoids/psbAtrnH.nex
inst/DNAlignments/Vataireoids/rpS16.nex
inst/DNAlignments/Vataireoids/trnDT.nex
inst/DNAlignments/Vataireoids/trnL.nex
inst/DNAlignments/Vataireoids/trnQ.nex
inst/DNAlignments/Vochysiaceae/accD.nex
inst/DNAlignments/Vochysiaceae/accD.phy
inst/DNAlignments/Vochysiaceae/atpA.nex
inst/DNAlignments/Vochysiaceae/atpA.phy
inst/DNAlignments/Vochysiaceae/atpB.nex
inst/DNAlignments/Vochysiaceae/atpB.phy
inst/DNAlignments/Vochysiaceae/atpE.nex
inst/DNAlignments/Vochysiaceae/atpE.phy
inst/DNAlignments/Vochysiaceae/atpF.nex
inst/DNAlignments/Vochysiaceae/atpF.phy
inst/DNAlignments/Vochysiaceae/atpH.nex
inst/DNAlignments/Vochysiaceae/atpH.phy
inst/DNAlignments/Vochysiaceae/atpI.nex
inst/DNAlignments/Vochysiaceae/atpI.phy
inst/DNAlignments/Vochysiaceae/ccsA.nex
inst/DNAlignments/Vochysiaceae/ccsA.phy
inst/DNAlignments/Vochysiaceae/cemA.nex
inst/DNAlignments/Vochysiaceae/cemA.phy
inst/DNAlignments/Vochysiaceae/clpP.nex
inst/DNAlignments/Vochysiaceae/clpP.phy
inst/DNAlignments/Vochysiaceae/matK.nex
inst/DNAlignments/Vochysiaceae/matK.phy
inst/DNAlignments/Vochysiaceae/ndhA.nex
inst/DNAlignments/Vochysiaceae/ndhA.phy
inst/DNAlignments/Vochysiaceae/ndhB.nex
inst/DNAlignments/Vochysiaceae/ndhB.phy
inst/DNAlignments/Vochysiaceae/ndhC.nex
inst/DNAlignments/Vochysiaceae/ndhC.phy
inst/DNAlignments/Vochysiaceae/ndhD.nex
inst/DNAlignments/Vochysiaceae/ndhD.phy
inst/DNAlignments/Vochysiaceae/ndhE.nex
inst/DNAlignments/Vochysiaceae/ndhE.phy
inst/DNAlignments/Vochysiaceae/ndhF.nex
inst/DNAlignments/Vochysiaceae/ndhF.phy
inst/DNAlignments/Vochysiaceae/ndhG.nex
inst/DNAlignments/Vochysiaceae/ndhG.phy
inst/DNAlignments/Vochysiaceae/ndhH.nex
inst/DNAlignments/Vochysiaceae/ndhH.phy
inst/DNAlignments/Vochysiaceae/ndhI.nex
inst/DNAlignments/Vochysiaceae/ndhI.phy
inst/DNAlignments/Vochysiaceae/ndhJ.nex
inst/DNAlignments/Vochysiaceae/ndhJ.phy
inst/DNAlignments/Vochysiaceae/ndhK.nex
inst/DNAlignments/Vochysiaceae/ndhK.phy
inst/DNAlignments/Vochysiaceae/petA.nex
inst/DNAlignments/Vochysiaceae/petA.phy
inst/DNAlignments/Vochysiaceae/petB.nex
inst/DNAlignments/Vochysiaceae/petB.phy
inst/DNAlignments/Vochysiaceae/petD.nex
inst/DNAlignments/Vochysiaceae/petD.phy
inst/DNAlignments/Vochysiaceae/petG.nex
inst/DNAlignments/Vochysiaceae/petG.phy
inst/DNAlignments/Vochysiaceae/petL.nex
inst/DNAlignments/Vochysiaceae/petL.phy
inst/DNAlignments/Vochysiaceae/petN.nex
inst/DNAlignments/Vochysiaceae/petN.phy
inst/DNAlignments/Vochysiaceae/psaA.nex
inst/DNAlignments/Vochysiaceae/psaA.phy
inst/DNAlignments/Vochysiaceae/psaB.nex
inst/DNAlignments/Vochysiaceae/psaB.phy
inst/DNAlignments/Vochysiaceae/psaC.nex
inst/DNAlignments/Vochysiaceae/psaC.phy
inst/DNAlignments/Vochysiaceae/psaI.nex
inst/DNAlignments/Vochysiaceae/psaI.phy
inst/DNAlignments/Vochysiaceae/psaJ.nex
inst/DNAlignments/Vochysiaceae/psaJ.phy
inst/DNAlignments/Vochysiaceae/psbA.nex
inst/DNAlignments/Vochysiaceae/psbA.phy
inst/DNAlignments/Vochysiaceae/psbB.nex
inst/DNAlignments/Vochysiaceae/psbB.phy
inst/DNAlignments/Vochysiaceae/psbC.nex
inst/DNAlignments/Vochysiaceae/psbC.phy
inst/DNAlignments/Vochysiaceae/psbD.nex
inst/DNAlignments/Vochysiaceae/psbD.phy
inst/DNAlignments/Vochysiaceae/psbE.nex
inst/DNAlignments/Vochysiaceae/psbE.phy
inst/DNAlignments/Vochysiaceae/psbF.nex
inst/DNAlignments/Vochysiaceae/psbF.phy
inst/DNAlignments/Vochysiaceae/psbH.nex
inst/DNAlignments/Vochysiaceae/psbH.phy
inst/DNAlignments/Vochysiaceae/psbI.nex
inst/DNAlignments/Vochysiaceae/psbI.phy
inst/DNAlignments/Vochysiaceae/psbJ.nex
inst/DNAlignments/Vochysiaceae/psbJ.phy
inst/DNAlignments/Vochysiaceae/psbK.nex
inst/DNAlignments/Vochysiaceae/psbK.phy
inst/DNAlignments/Vochysiaceae/psbL.nex
inst/DNAlignments/Vochysiaceae/psbL.phy
inst/DNAlignments/Vochysiaceae/psbM.nex
inst/DNAlignments/Vochysiaceae/psbM.phy
inst/DNAlignments/Vochysiaceae/psbN.nex
inst/DNAlignments/Vochysiaceae/psbN.phy
inst/DNAlignments/Vochysiaceae/psbT.nex
inst/DNAlignments/Vochysiaceae/psbT.phy
inst/DNAlignments/Vochysiaceae/psbZ.nex
inst/DNAlignments/Vochysiaceae/psbZ.phy
inst/DNAlignments/Vochysiaceae/rbcL.nex
inst/DNAlignments/Vochysiaceae/rbcL.phy
inst/DNAlignments/Vochysiaceae/rpl14.nex
inst/DNAlignments/Vochysiaceae/rpl14.phy
inst/DNAlignments/Vochysiaceae/rpl16.nex
inst/DNAlignments/Vochysiaceae/rpl16.phy
inst/DNAlignments/Vochysiaceae/rpl2.nex
inst/DNAlignments/Vochysiaceae/rpl2.phy
inst/DNAlignments/Vochysiaceae/rpl20.nex
inst/DNAlignments/Vochysiaceae/rpl20.phy
inst/DNAlignments/Vochysiaceae/rpl22.nex
inst/DNAlignments/Vochysiaceae/rpl22.phy
inst/DNAlignments/Vochysiaceae/rpl23.nex
inst/DNAlignments/Vochysiaceae/rpl23.phy
inst/DNAlignments/Vochysiaceae/rpl32.nex
inst/DNAlignments/Vochysiaceae/rpl32.phy
inst/DNAlignments/Vochysiaceae/rpl33.nex
inst/DNAlignments/Vochysiaceae/rpl33.phy
inst/DNAlignments/Vochysiaceae/rpl36.nex
inst/DNAlignments/Vochysiaceae/rpl36.phy
inst/DNAlignments/Vochysiaceae/rpoA.nex
inst/DNAlignments/Vochysiaceae/rpoA.phy
inst/DNAlignments/Vochysiaceae/rpoB.nex
inst/DNAlignments/Vochysiaceae/rpoB.phy
inst/DNAlignments/Vochysiaceae/rpoC1.nex
inst/DNAlignments/Vochysiaceae/rpoC1.phy
inst/DNAlignments/Vochysiaceae/rpoC2.nex
inst/DNAlignments/Vochysiaceae/rpoC2.phy
inst/DNAlignments/Vochysiaceae/rps11.nex
inst/DNAlignments/Vochysiaceae/rps11.phy
inst/DNAlignments/Vochysiaceae/rps12.nex
inst/DNAlignments/Vochysiaceae/rps12.phy
inst/DNAlignments/Vochysiaceae/rps14.nex
inst/DNAlignments/Vochysiaceae/rps14.phy
inst/DNAlignments/Vochysiaceae/rps15.nex
inst/DNAlignments/Vochysiaceae/rps15.phy
inst/DNAlignments/Vochysiaceae/rps16.nex
inst/DNAlignments/Vochysiaceae/rps16.phy
inst/DNAlignments/Vochysiaceae/rps18.nex
inst/DNAlignments/Vochysiaceae/rps18.phy
inst/DNAlignments/Vochysiaceae/rps19.nex
inst/DNAlignments/Vochysiaceae/rps19.phy
inst/DNAlignments/Vochysiaceae/rps2.nex
inst/DNAlignments/Vochysiaceae/rps2.phy
inst/DNAlignments/Vochysiaceae/rps3.nex
inst/DNAlignments/Vochysiaceae/rps3.phy
inst/DNAlignments/Vochysiaceae/rps4.nex
inst/DNAlignments/Vochysiaceae/rps4.phy
inst/DNAlignments/Vochysiaceae/rps7.nex
inst/DNAlignments/Vochysiaceae/rps7.phy
inst/DNAlignments/Vochysiaceae/rps8.nex
inst/DNAlignments/Vochysiaceae/rps8.phy
inst/DNAlignments/Vochysiaceae/ycf1.nex
inst/DNAlignments/Vochysiaceae/ycf1.phy
inst/DNAlignments/Vochysiaceae/ycf2.nex
inst/DNAlignments/Vochysiaceae/ycf2.phy
inst/DNAlignments/Vochysiaceae/ycf3.nex
inst/DNAlignments/Vochysiaceae/ycf3.phy
inst/DNAlignments/Vochysiaceae/ycf4.nex
inst/DNAlignments/Vochysiaceae/ycf4.phy
inst/DNAlignments/concatenated_output_files/Brongniartia_interleave_missingdata_multiaccessions.nex
inst/DNAlignments/concatenated_output_files/Brongniartia_interleave_missingdata_oneaccession.nex
inst/DNAlignments/concatenated_output_files/Brongniartia_interleave_nomissingdata.nex
inst/DNAlignments/concatenated_output_files/Brongniartia_missingdata_multiaccessions.phy
inst/DNAlignments/concatenated_output_files/Brongniartia_missingdata_multiaccessions_partition_file.txt
inst/DNAlignments/concatenated_output_files/Brongniartia_missingdata_oneaccession.phy
inst/DNAlignments/concatenated_output_files/Brongniartia_missingdata_oneaccession_partition_file.txt
inst/DNAlignments/concatenated_output_files/Brongniartia_nomissingdata.phy
inst/DNAlignments/concatenated_output_files/Brongniartia_nomissingdata_partition_file.txt
inst/DNAlignments/concatenated_output_files/Brongniartia_noninterleave_missingdata_multiaccessions.nex
inst/DNAlignments/concatenated_output_files/Gaya_interleave_missingdata.nex
inst/DNAlignments/concatenated_output_files/Gaya_interleave_nomissingdata.nex
inst/DNAlignments/concatenated_output_files/Gaya_missingdata.phy
inst/DNAlignments/concatenated_output_files/Gaya_missingdata_partition_file.txt
inst/DNAlignments/concatenated_output_files/Gaya_nomissingdata.phy
inst/DNAlignments/concatenated_output_files/Gaya_nomissingdata_partition_file.txt
inst/DNAlignments/concatenated_output_files/Gaya_noninterleave_missingdata.nex
inst/DNAlignments/concatenated_output_files/Gaya_noninterleave_nomissingdata.nex
inst/DNAlignments/concatenated_output_files/Luetzelburgia_interleave_missingdata_multiaccessions.nex
inst/DNAlignments/concatenated_output_files/Luetzelburgia_interleave_missingdata_oneaccession.nex
inst/DNAlignments/concatenated_output_files/Luetzelburgia_missingdata_multiaccessions.phy
inst/DNAlignments/concatenated_output_files/Luetzelburgia_missingdata_multiaccessions_partition_file.txt
inst/DNAlignments/concatenated_output_files/Luetzelburgia_missingdata_oneaccession.phy
inst/DNAlignments/concatenated_output_files/Luetzelburgia_missingdata_oneaccession_partition_file.txt
inst/DNAlignments/concatenated_output_files/Luetzelburgia_noninterleave_missingdata_multiaccessions.nex
inst/DNAlignments/concatenated_output_files/Ormosia_interleave_missingdata_multiaccessions.nex
inst/DNAlignments/concatenated_output_files/Ormosia_interleave_missingdata_oneaccession.nex
inst/DNAlignments/concatenated_output_files/Ormosia_missingdata_multiaccessions.phy
inst/DNAlignments/concatenated_output_files/Ormosia_missingdata_multiaccessions_partition_file.txt
inst/DNAlignments/concatenated_output_files/Ormosia_missingdata_oneaccession.phy
inst/DNAlignments/concatenated_output_files/Ormosia_missingdata_oneaccession_partition_file.txt
inst/DNAlignments/concatenated_output_files/Ormosia_noninterleave_missingdata_multiaccessions.nex
inst/DNAlignments/concatenated_output_files/Vataireoids_interleave_missingdata.nex
inst/DNAlignments/concatenated_output_files/Vataireoids_interleave_nomissingdata.nex
inst/DNAlignments/concatenated_output_files/Vataireoids_missingdata.phy
inst/DNAlignments/concatenated_output_files/Vataireoids_missingdata_partition_file.txt
inst/DNAlignments/concatenated_output_files/Vataireoids_nomissingdata.phy
inst/DNAlignments/concatenated_output_files/Vataireoids_nomissingdata_partition_file.txt
inst/DNAlignments/concatenated_output_files/Vataireoids_noninterleave_missingdata.nex
inst/DNAlignments/concatenated_output_files/Vataireoids_noninterleave_nomissingdata.nex
inst/DNAlignments/concatenated_output_files/Vochysiaceae_interleave_missingdata_multiaccessions.nex
inst/DNAlignments/concatenated_output_files/Vochysiaceae_interleave_missingdata_oneaccession.nex
inst/DNAlignments/concatenated_output_files/Vochysiaceae_missingdata_multiaccessions.phy
inst/DNAlignments/concatenated_output_files/Vochysiaceae_missingdata_multiaccessions_partition_file.txt
inst/DNAlignments/concatenated_output_files/Vochysiaceae_missingdata_oneaccession.phy
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inst/DNAlignments/concatenated_output_files/Vochysiaceae_noninterleave_missingdata_multiaccessions.nex
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vignettes/Manual.R
vignettes/Manual.Rmd
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vignettes/Vochysiaceae1.png
vignettes/Vochysiaceae2.png
vignettes/Vochysiaceae3.png
vignettes/catGenes_with_taxlabels1.png
vignettes/catGenes_with_taxlabels2.png
vignettes/concatenatedmatrix1.png
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vignettes/concatenatedmatrix3.png
vignettes/concatenatedmatrix3_partitition.png
vignettes/dropseq1.png
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vignettes/labelling_no_identifiers.png
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vignettes/other_label_fformatting.png
vignettes/shiny1.png
vignettes/shiny2.png
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