Files in diazrenata/sadspace
Exploring SAD space
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
R/count_elements.R
R/define_statevars.R
R/dist_metrics.R
R/get_object.R
R/sample_fs.R
R/utils-pipe.R
analysis/all_di.csv
analysis/di_summary_df.csv
analysis/diff_summary.csv
analysis/fs_size_dat.csv
analysis/reports/dist.Rmd
analysis/reports/dist.md
analysis/reports/dist_files/figure-markdown_github/all comparisons diff means-1.png
analysis/reports/dist_files/figure-markdown_github/all comparisons diff means-2.png
analysis/reports/dist_files/figure-markdown_github/all comparisons diff means-3.png
analysis/reports/dist_files/figure-markdown_github/all comparisons diff means-4.png
analysis/reports/dist_files/figure-markdown_github/all comparisons diff means-5.png
analysis/reports/dist_files/figure-markdown_github/density plots bounded-1.png
analysis/reports/dist_files/figure-markdown_github/density plots bounded-2.png
analysis/reports/dist_files/figure-markdown_github/density plots bounded-3.png
analysis/reports/dist_files/figure-markdown_github/density plots cd-1.png
analysis/reports/dist_files/figure-markdown_github/density plots r2-1.png
analysis/reports/dist_files/figure-markdown_github/density plots r2-2.png
analysis/reports/dist_files/figure-markdown_github/density plots r2-3.png
analysis/reports/dist_files/figure-markdown_github/density plots r2_log-1.png
analysis/reports/dist_files/figure-markdown_github/density plots r2_log-2.png
analysis/reports/dist_files/figure-markdown_github/density plots r2_log-3.png
analysis/reports/dist_files/figure-markdown_github/density plots wide-1.png
analysis/reports/dist_files/figure-markdown_github/density plots wide-2.png
analysis/reports/dist_files/figure-markdown_github/density plots-1.png
analysis/reports/dist_files/figure-markdown_github/density plots-2.png
analysis/reports/dist_files/figure-markdown_github/density plots-3.png
analysis/reports/dist_files/figure-markdown_github/density plots-4.png
analysis/reports/dist_files/figure-markdown_github/density plots-5.png
analysis/reports/dist_files/figure-markdown_github/kl div-1.png
analysis/reports/dist_files/figure-markdown_github/ncomparisons-1.png
analysis/reports/dist_files/figure-markdown_github/ncomparisons-2.png
analysis/reports/dist_files/figure-markdown_github/ncomparisons-3.png
analysis/reports/dist_files/figure-markdown_github/ncomparisons-4.png
analysis/reports/dist_files/figure-markdown_github/plots-1.png
analysis/reports/dist_files/figure-markdown_github/plots-10.png
analysis/reports/dist_files/figure-markdown_github/plots-11.png
analysis/reports/dist_files/figure-markdown_github/plots-12.png
analysis/reports/dist_files/figure-markdown_github/plots-13.png
analysis/reports/dist_files/figure-markdown_github/plots-14.png
analysis/reports/dist_files/figure-markdown_github/plots-15.png
analysis/reports/dist_files/figure-markdown_github/plots-16.png
analysis/reports/dist_files/figure-markdown_github/plots-17.png
analysis/reports/dist_files/figure-markdown_github/plots-18.png
analysis/reports/dist_files/figure-markdown_github/plots-19.png
analysis/reports/dist_files/figure-markdown_github/plots-2.png
analysis/reports/dist_files/figure-markdown_github/plots-20.png
analysis/reports/dist_files/figure-markdown_github/plots-21.png
analysis/reports/dist_files/figure-markdown_github/plots-22.png
analysis/reports/dist_files/figure-markdown_github/plots-23.png
analysis/reports/dist_files/figure-markdown_github/plots-24.png
analysis/reports/dist_files/figure-markdown_github/plots-25.png
analysis/reports/dist_files/figure-markdown_github/plots-26.png
analysis/reports/dist_files/figure-markdown_github/plots-27.png
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analysis/reports/dist_files/figure-markdown_github/plots-29.png
analysis/reports/dist_files/figure-markdown_github/plots-3.png
analysis/reports/dist_files/figure-markdown_github/plots-30.png
analysis/reports/dist_files/figure-markdown_github/plots-31.png
analysis/reports/dist_files/figure-markdown_github/plots-32.png
analysis/reports/dist_files/figure-markdown_github/plots-4.png
analysis/reports/dist_files/figure-markdown_github/plots-5.png
analysis/reports/dist_files/figure-markdown_github/plots-6.png
analysis/reports/dist_files/figure-markdown_github/plots-7.png
analysis/reports/dist_files/figure-markdown_github/plots-8.png
analysis/reports/dist_files/figure-markdown_github/plots-9.png
analysis/reports/dist_files/figure-markdown_github/prop_off-1.png
analysis/reports/dist_files/figure-markdown_github/small summary v summary plots-1.png
analysis/reports/dist_files/figure-markdown_github/small summary v summary plots-2.png
analysis/reports/dist_files/figure-markdown_github/small summary v summary plots-3.png
analysis/reports/dist_files/figure-markdown_github/small summary v summary plots-4.png
analysis/reports/dist_files/figure-markdown_github/small summary v summary plots-5.png
analysis/reports/fs_149_156.csv
analysis/reports/fs_149_245.csv
analysis/reports/fs_21_34.csv
analysis/reports/fs_21_91.csv
analysis/reports/fs_34_1097.csv
analysis/reports/fs_34_36316.csv
analysis/reports/fs_34_55.csv
analysis/reports/fs_3_1097.csv
analysis/reports/fs_3_13.csv
analysis/reports/fs_3_149.csv
analysis/reports/fs_3_36316.csv
analysis/reports/fs_3_8.csv
analysis/reports/fs_5_1097.csv
analysis/reports/fs_5_13.csv
analysis/reports/fs_5_149.csv
analysis/reports/fs_666_1097.csv
analysis/reports/hoover.Rmd
analysis/reports/report.Rmd
analysis/reports/report.md
analysis/reports/report_files/figure-markdown_github/dists-1.png
analysis/reports/report_files/figure-markdown_github/dists-10.png
analysis/reports/report_files/figure-markdown_github/dists-11.png
analysis/reports/report_files/figure-markdown_github/dists-12.png
analysis/reports/report_files/figure-markdown_github/dists-13.png
analysis/reports/report_files/figure-markdown_github/dists-14.png
analysis/reports/report_files/figure-markdown_github/dists-15.png
analysis/reports/report_files/figure-markdown_github/dists-16.png
analysis/reports/report_files/figure-markdown_github/dists-17.png
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analysis/reports/report_files/figure-markdown_github/dists-2.png
analysis/reports/report_files/figure-markdown_github/dists-3.png
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analysis/reports/report_files/figure-markdown_github/dists-5.png
analysis/reports/report_files/figure-markdown_github/dists-6.png
analysis/reports/report_files/figure-markdown_github/dists-7.png
analysis/reports/report_files/figure-markdown_github/dists-8.png
analysis/reports/report_files/figure-markdown_github/dists-9.png
analysis/reports/report_files/figure-markdown_github/focal heatmaps-1.png
analysis/reports/report_files/figure-markdown_github/focal heatmaps-10.png
analysis/reports/report_files/figure-markdown_github/focal heatmaps-11.png
analysis/reports/report_files/figure-markdown_github/focal heatmaps-12.png
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analysis/reports/report_files/figure-markdown_github/focal heatmaps-2.png
analysis/reports/report_files/figure-markdown_github/focal heatmaps-3.png
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analysis/reports/report_files/figure-markdown_github/focal heatmaps-6.png
analysis/reports/report_files/figure-markdown_github/focal heatmaps-7.png
analysis/reports/report_files/figure-markdown_github/focal heatmaps-8.png
analysis/reports/report_files/figure-markdown_github/focal heatmaps-9.png
analysis/reports/report_files/figure-markdown_github/nunique 1-1.png
analysis/reports/report_files/figure-markdown_github/nunique 2-1.png
analysis/reports/report_files/figure-markdown_github/nunique 2-2.png
analysis/reports/report_files/figure-markdown_github/nunique-1.png
analysis/reports/report_files/figure-markdown_github/nunique-2.png
analysis/reports/report_files/figure-markdown_github/nunique-3.png
analysis/reports/report_files/figure-markdown_github/plot focal communities-1.png
analysis/reports/report_files/figure-markdown_github/plot size of fs 1-1.png
analysis/reports/report_files/figure-markdown_github/plot size of fs 2-1.png
analysis/reports/report_files/figure-markdown_github/plot size of fs 2-2.png
analysis/reports/report_files/figure-markdown_github/plot size of fs 2-3.png
analysis/reports/report_files/figure-markdown_github/plot size of fs 2-4.png
analysis/reports/report_files/figure-markdown_github/plot size of fs 2-5.png
analysis/reports/report_files/figure-markdown_github/plot size of fs 2-6.png
analysis/reports/report_files/figure-markdown_github/plot size of fs 2-7.png
analysis/reports/report_files/figure-markdown_github/plot size of fs 2-8.png
analysis/reports/report_files/figure-markdown_github/plot size of fs-1.png
analysis/reports/report_files/figure-markdown_github/plot size of fs-2.png
analysis/reports/report_files/figure-markdown_github/plot size of fs-3.png
analysis/reports/report_files/figure-markdown_github/plot size of fs-4.png
analysis/reports/report_files/figure-markdown_github/plot size of fs-5.png
analysis/reports/report_files/figure-markdown_github/plot size of fs-6.png
analysis/reports/report_files/figure-markdown_github/plot size of fs-7.png
analysis/reports/report_files/figure-markdown_github/plot sn space-1.png
analysis/reports/report_files/figure-markdown_github/plot sn space-2.png
analysis/reports/report_files/figure-markdown_github/scadsanalysis-1.png
analysis/reports/report_files/figure-markdown_github/simpson hm-1.png
analysis/reports/report_files/figure-markdown_github/simpson hm-2.png
analysis/reports/report_files/figure-markdown_github/simpson hm-3.png
analysis/reports/report_files/figure-markdown_github/simpson hm-4.png
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analysis/reports/report_files/figure-markdown_github/simpson hm-6.png
analysis/reports/report_files/figure-markdown_github/simpson hm-7.png
analysis/reports/report_files/figure-markdown_github/simpson hm-8.png
analysis/reports/report_files/figure-markdown_github/simpson hm-9.png
analysis/reports/report_files/figure-markdown_github/simpson-1.png
analysis/reports/report_files/figure-markdown_github/simpson-10.png
analysis/reports/report_files/figure-markdown_github/simpson-2.png
analysis/reports/report_files/figure-markdown_github/simpson-3.png
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analysis/reports/report_files/figure-markdown_github/simpson-7.png
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analysis/reports/report_files/figure-markdown_github/skewness-1.png
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analysis/reports/report_files/figure-markdown_github/skewness-8.png
analysis/reports/report_files/figure-markdown_github/skewness-9.png
analysis/reports/report_nparts.Rmd
analysis/reports/report_nparts.md
analysis/reports/report_nparts_files/figure-markdown_github/cv in space-1.png
analysis/reports/report_nparts_files/figure-markdown_github/cv in space-2.png
analysis/reports/report_nparts_files/figure-markdown_github/cv v nparts-1.png
analysis/reports/report_nparts_files/figure-markdown_github/cv v nparts-2.png
analysis/reports/report_nparts_files/figure-markdown_github/nparts v variability-1.png
analysis/reports/report_nparts_files/figure-markdown_github/nparts v variability-2.png
analysis/reports/report_nparts_files/figure-markdown_github/plot size of fs 1-1.png
analysis/reports/report_nparts_files/figure-markdown_github/plot sn space-1.png
analysis/reports/report_nparts_files/figure-markdown_github/plot sn space-2.png
analysis/reports/report_smallparts.Rmd
analysis/reports/report_smallparts.md
analysis/reports/report_smallparts_files/figure-markdown_github/all fs-1.png
analysis/reports/report_smallparts_files/figure-markdown_github/dists-1.png
analysis/reports/report_smallparts_files/figure-markdown_github/dists-10.png
analysis/reports/report_smallparts_files/figure-markdown_github/dists-11.png
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analysis/reports/report_smallparts_files/figure-markdown_github/dists-3.png
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analysis/reports/report_smallparts_files/figure-markdown_github/dists-6.png
analysis/reports/report_smallparts_files/figure-markdown_github/dists-7.png
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analysis/reports/report_smallparts_files/figure-markdown_github/dists-9.png
analysis/reports/report_smallparts_files/figure-markdown_github/focal heatmaps-1.png
analysis/reports/report_smallparts_files/figure-markdown_github/focal heatmaps-10.png
analysis/reports/report_smallparts_files/figure-markdown_github/focal heatmaps-2.png
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analysis/reports/report_smallparts_files/figure-markdown_github/focal heatmaps-7.png
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analysis/reports/report_smallparts_files/figure-markdown_github/focal heatmaps-9.png
analysis/reports/report_smallparts_files/figure-markdown_github/hists-1.png
analysis/reports/report_smallparts_files/figure-markdown_github/hists-2.png
analysis/reports/report_smallparts_files/figure-markdown_github/nparts up to 12-1.png
analysis/reports/report_smallparts_files/figure-markdown_github/nparts up to 12-2.png
analysis/reports/report_smallparts_files/figure-markdown_github/plot focal communities-1.png
analysis/reports/report_smallparts_files/figure-markdown_github/plot size of fs 1-1.png
analysis/reports/report_smallparts_files/figure-markdown_github/plot sn space-1.png
analysis/reports/report_smallparts_files/figure-markdown_github/plot sn space-2.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-1.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-10.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-2.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-3.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-4.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-5.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-6.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-7.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-8.png
analysis/reports/report_smallparts_files/figure-markdown_github/simpson hm-9.png
analysis/reports/rov.Rmd
analysis/reports/rov.md
analysis/reports/rov_files/figure-markdown_github/rov heatmaps-1.png
analysis/reports/rov_files/figure-markdown_github/rov heatmaps-2.png
analysis/sample_pipeline.R
codecov.yml
gc_files.txt
logs/pipeline50635765.err
logs/pipeline50635765.out
man/assign_ptable.Rd
man/count_elements.Rd
man/define_statevars.Rd
man/fs_cd.Rd
man/fs_di.Rd
man/fs_diff_sampler.Rd
man/fs_div.Rd
man/fs_r2.Rd
man/get_object.Rd
man/hoover.Rd
man/pipe.Rd
man/proportion_off.Rd
man/rep_diff_sampler.Rd
man/sample_fs.Rd
p11_files.txt
sadspace.Rproj
slurm_clustermq.tmpl
submit_pipeline.sbatch
