Files in dwinter/pafr
Read, Manipulate and Visualize 'Pairwise mApping Format' Data
.Rbuildignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/IO.r
R/coverage_plot.r
R/dotplot.R
R/filter_ali.r
R/scale.r
R/synteny.r
README.Rmd
README.md
_pkgdown.yml
codecov.yml
cran-comments.md
docs/404.html
docs/LICENSE-text.html
docs/articles/Introduction_to_pafr.html
docs/articles/Introduction_to_pafr_files/anchor-sections-1.0/anchor-sections.css
docs/articles/Introduction_to_pafr_files/anchor-sections-1.0/anchor-sections.js
docs/articles/Introduction_to_pafr_files/figure-html/alen-1.png
docs/articles/Introduction_to_pafr_files/figure-html/cov_colourful-1.png
docs/articles/Introduction_to_pafr_files/figure-html/cov_plot-1.png
docs/articles/Introduction_to_pafr_files/figure-html/cov_target-1.png
docs/articles/Introduction_to_pafr_files/figure-html/dot_provided-1.png
docs/articles/Introduction_to_pafr_files/figure-html/dot_qstart-1.png
docs/articles/Introduction_to_pafr_files/figure-html/dotplot_plain-1.png
docs/articles/Introduction_to_pafr_files/figure-html/highlight-1.png
docs/articles/Introduction_to_pafr_files/figure-html/highlight_t-1.png
docs/articles/Introduction_to_pafr_files/figure-html/syny_plot-1.png
docs/articles/Introduction_to_pafr_files/figure-html/unnamed-chunk-1-1.png
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docs/articles/Introduction_to_pafr_files/figure-html/unnamed-chunk-6-1.png
docs/articles/index.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/Gb_lab.html
docs/reference/Rplot001.png
docs/reference/Rplot002.png
docs/reference/Rplot003.png
docs/reference/as_paf.html
docs/reference/chrom_sizes.html
docs/reference/dotplot-1.png
docs/reference/dotplot-2.png
docs/reference/dotplot-3.png
docs/reference/dotplot.html
docs/reference/figures/README-coverage-1.png
docs/reference/figures/README-dotplot-1.png
docs/reference/figures/README-len_distr-1.png
docs/reference/figures/README-synteny-1.png
docs/reference/filter_secondary_alignments.html
docs/reference/highlight_dotplot-1.png
docs/reference/highlight_dotplot-2.png
docs/reference/highlight_dotplot.html
docs/reference/index.html
docs/reference/plot_coverage-1.png
docs/reference/plot_coverage-2.png
docs/reference/plot_coverage.html
docs/reference/plot_synteny-1.png
docs/reference/plot_synteny-2.png
docs/reference/plot_synteny-3.png
docs/reference/plot_synteny.html
docs/reference/read_bed.html
docs/reference/read_paf.html
docs/reference/theme_coverage_plot-1.png
docs/reference/theme_coverage_plot.html
inst/extdata/Q_centro.bed
inst/extdata/fungi.paf
man/Gb_lab.Rd
man/as_paf.Rd
man/chrom_sizes.Rd
man/dotplot.Rd
man/figures/README-coverage-1.png
man/figures/README-dotplot-1.png
man/figures/README-len_distr-1.png
man/figures/README-synteny-1.png
man/filter_secondary_alignments.Rd
man/highlight_dotplot.Rd
man/plot_coverage.Rd
man/plot_synteny.Rd
man/read_bed.Rd
man/read_paf.Rd
man/theme_coverage_plot.Rd
tests/testthat.R
tests/testthat/all_inverted.paf
tests/testthat/bad_I.bed
tests/testthat/helper_load_ali.r
tests/testthat/tagless.paf
tests/testthat/test_I.bed
tests/testthat/test_IO.r
tests/testthat/test_T.bed
tests/testthat/test_ali.paf
tests/testthat/test_bed.r
tests/testthat/test_cov_plot.r
tests/testthat/test_manipulation.r
tests/testthat/test_plot.r
tests/testthat/test_syn_plot.r
vignettes/Introduction_to_pafr.Rmd
