Files in drostlab/homologr
Homology inference across multiple species
.Rbuildignore
DESCRIPTION
NAMESPACE
NEWS.md
R/check_annotation_file_completeness.R
R/codon_aln.R
R/dimond_best_hit.R
R/dimond_rec_best_hit.R.R
R/dnds.R
R/dnds_across_multiple_species.R
R/dnds_across_species_plot.R
R/extract_features.R
R/filter_best_hits.R
R/import_cds.R
R/import_dnds_across_multiple_species.R
R/import_dnds_tbl.R
R/import_proteome.R
R/internal_dnds.R
R/internal_import_dnds_across_multiple_species.R
R/is_codon_aln_tool.R
R/is_dna_sequence.R
R/is_dnds_estimator.R
R/is_ortho_detection_method.R
R/is_pairwise_aln_tool.R
R/pairwise_aln.R
R/select_best_splice_Variants.R
R/substitutionrate.R
R/transl.R
R/transl_cds_to_aa.R
README.md
docs/404.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/news/index.html
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/Rplot001.png
docs/reference/check_annotation_file_completeness.html
docs/reference/codon_aln.html
docs/reference/diamond_best_hits.html
docs/reference/diamond_reciprocal_best_hits.html
docs/reference/dnds.html
docs/reference/dnds_across_multiple_species.html
docs/reference/dnds_across_multiple_species_plot.html
docs/reference/extract_features.html
docs/reference/filter_best_hits.html
docs/reference/import_cds.html
docs/reference/import_dnds_across_multiple_species.html
docs/reference/import_dnds_tbl.html
docs/reference/import_proteome.html
docs/reference/index.html
docs/reference/internal_dnds.html
docs/reference/internal_import_dnds_across_multiple_species.html
docs/reference/pairwise_aln.html
docs/reference/select_best_splice_variants.html
docs/reference/substitutionrate.html
docs/reference/transl.html
docs/reference/transl_cds_to_aa.html
inst/KaKs_Calc_parser/parseFastaIntoAXT.pl
inst/pal2nal/pal2nal.v14/README
inst/pal2nal/pal2nal.v14/for_paml/test.cnt
inst/pal2nal/pal2nal.v14/for_paml/test.codeml.ori
inst/pal2nal/pal2nal.v14/for_paml/test.tree
inst/pal2nal/pal2nal.v14/pal2nal.pl
inst/pal2nal/pal2nal.v14/test.aln
inst/pal2nal/pal2nal.v14/test.nuc
inst/seqs/aa_seqs.aln
inst/seqs/aa_seqs.dnd
inst/seqs/aa_seqs.fasta
inst/seqs/dna_seqs.fasta
inst/seqs/example.fa
inst/seqs/example_alyra_aa.faa
inst/seqs/example_athal_aa.faa
inst/seqs/example_brapa_aa.faa
inst/seqs/example_thalo_aa.faa
inst/seqs/map_gen_example/ortho_lyra_cds.fasta
inst/seqs/map_gen_example/ortho_thal_cds.fasta
inst/seqs/multi_aln_example.fasta
inst/seqs/ortho_lyra_aa.fasta
inst/seqs/ortho_lyra_cds.fasta
inst/seqs/ortho_lyra_cds_1000.fasta
inst/seqs/ortho_thal_aa.fasta
inst/seqs/ortho_thal_cds.fasta
inst/seqs/ortho_thal_cds_1000.fasta
inst/seqs/pal2nal.aln
man/check_annotation_file_completeness.Rd
man/codon_aln.Rd
man/diamond_best_hits.Rd
man/diamond_reciprocal_best_hits.Rd
man/dnds.Rd
man/dnds_across_multiple_species.Rd
man/dnds_across_multiple_species_plot.Rd
man/extract_features.Rd
man/filter_best_hits.Rd
man/import_cds.Rd
man/import_dnds_across_multiple_species.Rd
man/import_dnds_tbl.Rd
man/import_proteome.Rd
man/internal_dnds.Rd
man/internal_import_dnds_across_multiple_species.Rd
man/pairwise_aln.Rd
man/select_best_splice_variants.Rd
man/substitutionrate.Rd
man/transl.Rd
man/transl_cds_to_aa.Rd
src/homologr.cpp
tests/testthat.R
