Files in compbiomed/animalcules
Statistical microbiome analysis on metagenomics data

.Rbuildignore
.gitignore
.travis.yml
CONDUCT.md
DESCRIPTION
LICENSE
NAMESPACE
R/MAE.R R/align_target.R R/alpha_div_boxplot.R R/alpha_div_test.R R/animalcules-package.R R/animalculesID.R R/demultiplex.R R/differential_abundance.R R/dimred_pca.R R/dimred_pcoa.R R/diversities.R R/diversities_help.R R/diversity_beta_boxplot.R R/diversity_beta_heatmap.R R/diversity_beta_test.R R/do_alpha_div_test.R R/download_refseq.R R/filter_categorize.R R/filter_summary_bottom.R R/filter_summary_top.R R/find_biomarker.R R/find_taxon_mat.R R/find_taxonomy.R R/find_taxonomy_300.R R/gini_simpson.R R/grep_tid.R R/inverse_simpson.R R/mk_subread_index.R R/read_pathoscope_data.R R/relabu_barplot.R R/relabu_boxplot.R R/relabu_heatmap.R R/runApp.R R/shannon.R R/simpson_index.R R/utils.R README.md
animalcules.Rproj
codecov.yml
data-raw/animalcules.R
data/MAE.rda
inst/extdata/MAE.rds
inst/extdata/animalcules.rds
inst/extdata/barcodes.txt
inst/extdata/virus_example.fastq
inst/extdata/virus_example_index.fastq
inst/extdata/workflow.png
inst/shiny/app.R inst/shiny/server/server_01_upload.R inst/shiny/server/server_02_filter.R inst/shiny/server/server_03_relabu.R inst/shiny/server/server_04_diversity.R inst/shiny/server/server_05_dimred.R inst/shiny/server/server_06_differential.R inst/shiny/server/server_07_biomarker.R inst/shiny/ui/ui_01_upload.R inst/shiny/ui/ui_02_filter.R inst/shiny/ui/ui_03_relabu.R inst/shiny/ui/ui_04_diversity.R inst/shiny/ui/ui_05_dimred.R inst/shiny/ui/ui_06_differential.R inst/shiny/ui/ui_07_biomarker.R inst/shiny/utils/helpers.R inst/shiny/utils/server_util.R inst/shiny/utils/ui_util.R
inst/shiny/www/ajax-loader-bar.gif
inst/shiny/www/bootstrap.min.css
inst/shiny/www/bu_bioinfo_logo.png
inst/shiny/www/bu_logo.png
inst/shiny/www/cbm_logo.jpeg
inst/shiny/www/cbm_logo.png
inst/shiny/www/count_table_example.png
man/MAE.Rd man/align_target.Rd man/alpha_div_boxplot.Rd man/alpha_div_test.Rd man/animalcules-package.Rd man/animalcules_id.Rd man/bam_reheader_R.Rd man/combined_header.Rd man/counts_to_logcpm.Rd man/counts_to_relabu.Rd man/demultiplex.Rd man/df_char_to_factor.Rd man/differential_abundance.Rd man/dimred_pca.Rd man/dimred_pcoa.Rd man/diversities.Rd man/diversities_help.Rd man/diversity_beta_boxplot.Rd man/diversity_beta_heatmap.Rd man/diversity_beta_test.Rd man/do_alpha_div_test.Rd man/download_refseq.Rd man/extractReads.Rd man/filter_categorize.Rd man/filter_summary_bottom.Rd man/filter_summary_top.Rd man/filter_unmapped_reads.Rd man/find_biomarker.Rd man/find_taxon_mat.Rd man/find_taxonomy.Rd man/find_taxonomy_300.Rd man/gini_simpson.Rd man/grep_tid.Rd man/inverse_simpson.Rd man/is.categorical.Rd man/is.integer0.Rd man/mae_pick_organisms.Rd man/mae_pick_samples.Rd man/merge_bam_files.Rd man/mk_subread_index.Rd man/pct2str.Rd man/percent.Rd man/read_pathoscope_data.Rd man/relabu_barplot.Rd man/relabu_boxplot.Rd man/relabu_heatmap.Rd man/run_animalcules.Rd man/shannon.Rd man/simpson_index.Rd man/upsample_counts.Rd tests/testthat.R tests/testthat/test-multiplication.R vignettes/animalcules.Rmd
compbiomed/animalcules documentation built on Jan. 17, 2019, 6 a.m.