Files in kkdey/aRchaic.site
Visualization, Exploration and Clustering of Ancient vs Modern BAM mutation patterns

.DS_Store
.RData
.Rbuildignore
.Rhistory
.Rprofile
.gitignore
DESCRIPTION
NAMESPACE
R/aRchaic_class.R R/aRchaic_class_beta.R R/aRchaic_cluster.R R/aRchaic_cluster_beta.R R/aRchaic_cluster_beta_mutation.R R/aRchaic_cluster_beta_mutation_flank.R R/aRchaic_cluster_beta_mutation_flank_pos.R R/aRchaic_cluster_beta_mutation_pos.R R/aRchaic_cluster_beta_pos.R R/aRchaic_cluster_beta_wo_strand.R R/aRchaic_cluster_beta_wo_strand_break.R R/aRchaic_mutation_trend.R R/aRchaic_pca.R R/aRchaic_pca_beta.R R/aRchaic_pool.R R/aRchaic_tsne.R R/aRchaic_tsne_beta.R R/aRchaic_view.R R/aggregate_signature_counts.R R/club_signature_counts.R R/damageLogo_1.R R/damageLogo_2.R R/damageLogo_3.R R/damageLogo_4.R R/damageLogo_5.R R/filter_by_mutation.R R/filter_by_mutation_flank.R R/filter_by_mutation_flank_pos.R R/filter_by_mutation_pos.R R/filter_by_pos.R R/filter_by_pos_pattern.R R/filter_out_strand.R R/filter_out_strand_break.R R/filter_signatures_only_location.R R/flanking_base_composition.R R/read_length_distribution.R R/strand_breaks_composition.R R/structureggplot_2.R R/theta_breakdown.R README.md
aRchaic.site.Rproj
articles/.DS_Store
articles/Bone2.jpg
articles/Bone3.png
articles/Bone4.png
articles/GitHub-Mark-64px.png
articles/GitHub-Mark.zip
articles/GitHub-Mark/.DS_Store
articles/GitHub-Mark/PNG/.DS_Store
articles/GitHub-Mark/PNG/GitHub-Mark-120px-plus.png
articles/GitHub-Mark/PNG/GitHub-Mark-32px.png
articles/GitHub-Mark/PNG/GitHub-Mark-Light-120px-plus.png
articles/GitHub-Mark/PNG/GitHub-Mark-Light-32px.png
articles/GitHub-Mark/PNG/GitHub-Mark-Light-64px.png
articles/GitHub-Mark/Vector/GitHub-Mark.ai
articles/GitHub-Mark/Vector/GitHub-Mark.eps
articles/archaic_plot.png
articles/bone.png
articles/demo.png
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articles/logo_design.jpg
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articles/logos_with_text.key
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articles/logos_with_text/logos_with_text.003.png
articles/logos_with_text/logos_with_text.004.png
articles/mutation_trend_plot.png
articles/overview.png
articles/readlength_plot.png
articles/skoglund_plot.png
articles/skull.jpg
articles/skull.png
articles/trash
docs/.DS_Store
docs/Bone2.svg
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docs/authors.html
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docs/demo.html
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docs/index.html
docs/index2.R
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docs/introduction.html
docs/jquery.sticky-kit.min.js
docs/link.svg
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docs/output/.DS_Store
docs/output/README.md
docs/output/aRchaic_cluster.key
docs/output/aRchaic_cluster/aRchaic_cluster.001.png
docs/output/aRchaic_cluster/aRchaic_cluster.002.png
docs/output/aRchaic_cluster/aRchaic_cluster.003.png
docs/output/base_probs_temp_2.rda
docs/output/logo.png
docs/output/logo_Gok4_Skoglund.png
docs/output/logo_Gok4_Skoglund_2.png
docs/output/read_length.png
docs/output/skoglund_2/logo_clus_1.png
docs/output/skoglund_2/logo_clus_2.png
docs/output/skoglund_2/model.rda
docs/output/skoglund_2/structure.png
docs/output/skoglund_moderns_2/.DS_Store
docs/output/skoglund_moderns_2/logo_clus_1.png
docs/output/skoglund_moderns_2/logo_clus_2.png
docs/output/skoglund_moderns_2/model.rda
docs/output/skoglund_moderns_2/structure.png
docs/output/skoglund_moderns_2_background/logo_clus_1.png
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docs/output/skoglund_moderns_2_background/model.rda
docs/output/skoglund_moderns_2_background/pca.png
docs/output/skoglund_moderns_2_background/pca.rda
docs/output/skoglund_moderns_2_background/structure.png
docs/pkgdown.css
docs/pkgdown.js
docs/reference/aggregate_signature_counts.html
docs/reference/club_signature_counts.html
docs/reference/damageLogo_five.html
docs/reference/index.html
docs/reference/read_length_distribution.html
docs/skeleton.svg
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docs/stylesheets/bootstrap.2.2.2.min.css
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docs/stylesheets/kbroman.css
docs/stylesheets/print.css
docs/stylesheets/pygment_trac.css
docs/stylesheets/stylesheet.css
docs/test.html
docs/test.md
docs/tutorial.html
docs/vignettes.html
man/aggregate_signature_counts.Rd man/club_signature_counts.Rd man/damageLogo_five.Rd man/read_length_distribution.Rd
output/.DS_Store
output/README.md
output/aRchaic_cluster.key
output/aRchaic_cluster/aRchaic_cluster.001.png
output/aRchaic_cluster/aRchaic_cluster.002.png
output/aRchaic_cluster/aRchaic_cluster.003.png
output/base_probs_temp_2.rda
output/logo.png
output/logo_Gok4_Skoglund.png
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output/read_length.png
output/skoglund_2/logo_clus_1.png
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output/skoglund_2/model.rda
output/skoglund_2/structure.png
output/skoglund_moderns_2/.DS_Store
output/skoglund_moderns_2/logo_clus_1.png
output/skoglund_moderns_2/logo_clus_2.png
output/skoglund_moderns_2/model.rda
output/skoglund_moderns_2/structure.png
output/skoglund_moderns_2_background/logo_clus_1.png
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output/skoglund_moderns_2_background/model.rda
output/skoglund_moderns_2_background/pca.png
output/skoglund_moderns_2_background/pca.rda
output/skoglund_moderns_2_background/structure.png
packrat/.DS_Store
packrat/init.R
packrat/packrat.lock
packrat/packrat.opts
packrat/src/R6/R6_2.2.0.tar.gz
packrat/src/Rcpp/Rcpp_0.12.9.tar.gz
packrat/src/assertthat/assertthat_0.1.tar.gz
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packrat/src/whisker/whisker_0.3-2.tar.gz
packrat/src/withr/withr_1.0.2.tar.gz
kkdey/aRchaic.site documentation built on Jan. 10, 2018, 6:58 a.m.