Files in buenrostrolab/FigR
Functional Inference of Gene Regulation (FigR) using paired single cell ATAC-seq and RNA-seq data

.gitignore
DESCRIPTION
FigR.Rproj
LICENSE
NAMESPACE
R/DORCs.R R/FigR.R R/cellPairing.R R/utils.R README.md
_pkgdown.yml
data/cisBP_human_pfms_2021.rds
data/cisBP_mouse_pfms_2021.rds
data/hg19_refSeq.RData
data/hg38_refseq.RData
data/mm10_refSeq.RData
docs/404.html
docs/LICENSE-text.html
docs/articles/FigR_shareseq.html
docs/articles/FigR_shareseq_files/crosstalk-1.1.1/css/crosstalk.css
docs/articles/FigR_shareseq_files/crosstalk-1.1.1/js/crosstalk.js
docs/articles/FigR_shareseq_files/crosstalk-1.1.1/js/crosstalk.js.map
docs/articles/FigR_shareseq_files/crosstalk-1.1.1/js/crosstalk.min.js
docs/articles/FigR_shareseq_files/crosstalk-1.1.1/js/crosstalk.min.js.map
docs/articles/FigR_shareseq_files/d3-4.5.0/LICENSE
docs/articles/FigR_shareseq_files/d3-4.5.0/d3.min.js
docs/articles/FigR_shareseq_files/figure-html/firstUMAP-1.png
docs/articles/FigR_shareseq_files/figure-html/getDORCs-1.png
docs/articles/FigR_shareseq_files/figure-html/plotDrivers-1.png
docs/articles/FigR_shareseq_files/figure-html/plotHeat-1.png
docs/articles/FigR_shareseq_files/figure-html/plotHeat2-1.png
docs/articles/FigR_shareseq_files/figure-html/plotallFigR-1.png
docs/articles/FigR_shareseq_files/figure-html/rankDrivers-1.png
docs/articles/FigR_shareseq_files/figure-html/visDORCs-1.png
docs/articles/FigR_shareseq_files/forceNetwork-binding-0.4/forceNetwork.js
docs/articles/FigR_shareseq_files/htmlwidgets-1.5.3/htmlwidgets.js
docs/articles/FigR_shareseq_files/plotly-binding-4.9.3/plotly.js
docs/articles/FigR_shareseq_files/plotly-htmlwidgets-css-1.57.1/plotly-htmlwidgets.css
docs/articles/FigR_shareseq_files/plotly-main-1.57.1/plotly-latest.min.js
docs/articles/FigR_shareseq_files/typedarray-0.1/typedarray.min.js
docs/articles/FigR_stim.html
docs/articles/FigR_stim_files/crosstalk-1.1.1/css/crosstalk.css
docs/articles/FigR_stim_files/crosstalk-1.1.1/js/crosstalk.js
docs/articles/FigR_stim_files/crosstalk-1.1.1/js/crosstalk.js.map
docs/articles/FigR_stim_files/crosstalk-1.1.1/js/crosstalk.min.js
docs/articles/FigR_stim_files/crosstalk-1.1.1/js/crosstalk.min.js.map
docs/articles/FigR_stim_files/d3-4.5.0/LICENSE
docs/articles/FigR_stim_files/d3-4.5.0/d3.min.js
docs/articles/FigR_stim_files/figure-html/CCAumap-1.png
docs/articles/FigR_stim_files/figure-html/getDORCs-1.png
docs/articles/FigR_stim_files/figure-html/plotATAC-1.png
docs/articles/FigR_stim_files/figure-html/plotHeat-1.png
docs/articles/FigR_stim_files/figure-html/plotPairs-1.png
docs/articles/FigR_stim_files/figure-html/plotallFigR-1.png
docs/articles/FigR_stim_files/figure-html/rankDrivers-1.png
docs/articles/FigR_stim_files/figure-html/visDORCs-1.png
docs/articles/FigR_stim_files/forceNetwork-binding-0.4/forceNetwork.js
docs/articles/FigR_stim_files/htmlwidgets-1.5.3/htmlwidgets.js
docs/articles/FigR_stim_files/plotly-binding-4.9.3/plotly.js
docs/articles/FigR_stim_files/plotly-htmlwidgets-css-1.57.1/plotly-htmlwidgets.css
docs/articles/FigR_stim_files/plotly-main-1.57.1/plotly-latest.min.js
docs/articles/FigR_stim_files/typedarray-0.1/typedarray.min.js
docs/articles/index.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/deps/bootstrap-5.1.0/bootstrap.bundle.min.js
docs/deps/bootstrap-5.1.0/bootstrap.bundle.min.js.map
docs/deps/bootstrap-5.1.0/bootstrap.min.css
docs/deps/bootstrap-5.1.0/font.css
docs/deps/bootstrap-5.1.0/fonts/1Ptxg8zYS_SKggPN4iEgvnHyvveLxVs9pbCIPrc.woff
docs/deps/bootstrap-5.1.0/fonts/1Ptxg8zYS_SKggPN4iEgvnHyvveLxVvaorCIPrc.woff
docs/deps/bootstrap-5.1.0/fonts/4iCs6KVjbNBYlgo6ew.woff
docs/deps/bootstrap-5.1.0/fonts/4iCs6KVjbNBYlgoKfw7w.woff
docs/deps/bootstrap-5.1.0/fonts/4iCv6KVjbNBYlgoCxCvTtA.woff
docs/deps/bootstrap-5.1.0/fonts/4iCv6KVjbNBYlgoCxCvjsGyL.woff
docs/deps/bootstrap-5.1.0/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7nsDQ.woff
docs/deps/bootstrap-5.1.0/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPa7j.woff
docs/deps/bootstrap-5.1.0/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3aPA.woff
docs/deps/bootstrap-5.1.0/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qOK7j.woff
docs/deps/bootstrap-5.1.0/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rAkw.woff
docs/deps/bootstrap-5.1.0/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vAkw.woff
docs/deps/bootstrap-5.1.0/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwlxdo.woff
docs/deps/bootstrap-5.1.0/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zAkw.woff
docs/deps/bootstrap-5.1.0/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwlxdo.woff
docs/deps/bootstrap-5.1.0/fonts/CSR54z1Qlv-GDxkbKVQ_dFsvWNRevw.woff
docs/deps/bootstrap-5.1.0/fonts/CSR54z1Qlv-GDxkbKVQ_dFsvaNA.woff
docs/deps/bootstrap-5.1.0/fonts/CSR64z1Qlv-GDxkbKVQ_TOQ.woff
docs/deps/bootstrap-5.1.0/fonts/CSR64z1Qlv-GDxkbKVQ_fOAKSw.woff
docs/deps/bootstrap-5.1.0/fonts/JTURjIg1_i6t8kCHKm45_ZpC7g0.woff
docs/deps/bootstrap-5.1.0/fonts/JTURjIg1_i6t8kCHKm45_dJE7g0.woff
docs/deps/bootstrap-5.1.0/fonts/JTUSjIg1_i6t8kCHKm45xW0.woff
docs/deps/bootstrap-5.1.0/fonts/KFOlCnqEu92Fr1MmEU9fBBc-.woff
docs/deps/bootstrap-5.1.0/fonts/KFOlCnqEu92Fr1MmEU9vAA.woff
docs/deps/bootstrap-5.1.0/fonts/KFOlCnqEu92Fr1MmSU5fBBc-.woff
docs/deps/bootstrap-5.1.0/fonts/KFOlCnqEu92Fr1MmSU5vAA.woff
docs/deps/bootstrap-5.1.0/fonts/KFOlCnqEu92Fr1MmWUlfBBc-.woff
docs/deps/bootstrap-5.1.0/fonts/KFOlCnqEu92Fr1MmWUlvAA.woff
docs/deps/bootstrap-5.1.0/fonts/KFOmCnqEu92Fr1Me5g.woff
docs/deps/bootstrap-5.1.0/fonts/KFOmCnqEu92Fr1Mu4mxM.woff
docs/deps/bootstrap-5.1.0/fonts/QGYpz_kZZAGCONcK2A4bGOj8mNhL.woff
docs/deps/bootstrap-5.1.0/fonts/S6u8w4BMUTPHjxsAXC-s.woff
docs/deps/bootstrap-5.1.0/fonts/S6u8w4BMUTPHjxswWA.woff
docs/deps/bootstrap-5.1.0/fonts/S6u9w4BMUTPHh6UVSwiPHw.woff
docs/deps/bootstrap-5.1.0/fonts/S6u9w4BMUTPHh6UVeww.woff
docs/deps/bootstrap-5.1.0/fonts/S6u9w4BMUTPHh7USSwiPHw.woff
docs/deps/bootstrap-5.1.0/fonts/S6u9w4BMUTPHh7USeww.woff
docs/deps/bootstrap-5.1.0/fonts/S6uyw4BMUTPHjx4wWA.woff
docs/deps/bootstrap-5.1.0/fonts/S6uyw4BMUTPHvxo.woff
docs/deps/bootstrap-5.1.0/fonts/UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuFuYMZs.woff
docs/deps/bootstrap-5.1.0/fonts/UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuI6fMZs.woff
docs/deps/bootstrap-5.1.0/fonts/UcCO3FwrK3iLTeHuS_fvQtMwCp50KnMw2boKoduKmMEVuLyfMZs.woff
docs/deps/bootstrap-5.1.0/fonts/XRXV3I6Li01BKof4MQ.woff
docs/deps/bootstrap-5.1.0/fonts/XRXW3I6Li01BKofA6sKkZQ.woff
docs/deps/bootstrap-5.1.0/fonts/XRXW3I6Li01BKofAjsOkZQ.woff
docs/deps/bootstrap-5.1.0/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk5hkWVAexg.woff
docs/deps/bootstrap-5.1.0/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk5hkaVQ.woff
docs/deps/bootstrap-5.1.0/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk8ZkWVAexg.woff
docs/deps/bootstrap-5.1.0/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0Rk8ZkaVQ.woff
docs/deps/bootstrap-5.1.0/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0RkyFjWVAexg.woff
docs/deps/bootstrap-5.1.0/fonts/memQYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWq8tWZ0Pw86hd0RkyFjaVQ.woff
docs/deps/bootstrap-5.1.0/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsg-1x4gaVQ.woff
docs/deps/bootstrap-5.1.0/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsg-1y4k.woff
docs/deps/bootstrap-5.1.0/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsiH0B4gaVQ.woff
docs/deps/bootstrap-5.1.0/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsiH0C4k.woff
docs/deps/bootstrap-5.1.0/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsjZ0B4gaVQ.woff
docs/deps/bootstrap-5.1.0/fonts/memSYaGs126MiZpBA-UvWbX2vVnXBbObj2OVZyOOSr4dVJWUgsjZ0C4k.woff
docs/deps/bootstrap-5.1.0/fonts/pe03MImSLYBIv1o4X1M8cc9iB_5p.woff
docs/deps/bootstrap-5.1.0/fonts/pe0qMImSLYBIv1o4X1M8cfe5.woff
docs/deps/bootstrap-5.1.0/fonts/q5uGsou0JOdh94bfvQlr.woff
docs/deps/data-deps.txt
docs/deps/jquery-3.5.1/AUTHORS.txt
docs/deps/jquery-3.5.1/LICENSE.txt
docs/deps/jquery-3.5.1/jquery-1.12.4.js
docs/deps/jquery-3.5.1/jquery-1.12.4.min.js
docs/deps/jquery-3.5.1/jquery-1.12.4.min.map
docs/deps/jquery-3.5.1/jquery-2.2.4.js
docs/deps/jquery-3.5.1/jquery-2.2.4.min.js
docs/deps/jquery-3.5.1/jquery-2.2.4.min.map
docs/deps/jquery-3.5.1/jquery-3.5.1.js
docs/deps/jquery-3.5.1/jquery-3.5.1.min.js
docs/deps/jquery-3.5.1/jquery-3.5.1.min.map
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/Rplot001.png
docs/reference/cell_pairing.html
docs/reference/centerCounts.html
docs/reference/dorcJPlot.html
docs/reference/extractTFNames.html
docs/reference/figures/FigR.PNG
docs/reference/figures/PBMCs.png
docs/reference/figures/skinv2.png
docs/reference/getDORCScores.html
docs/reference/index.html
docs/reference/motifPeakZtest.html
docs/reference/pairCells.html
docs/reference/plotDrivers.html
docs/reference/plotMarker2D.html
docs/reference/plotPairs.html
docs/reference/plotfigRHeatmap.html
docs/reference/plotfigRNetwork.html
docs/reference/rankDrivers.html
docs/reference/runFigRGRN.html
docs/reference/runGenePeakcorr.html
docs/reference/smoothScoresNN.html
docs/reference/splitAndFetch.html
docs/search.json
docs/sitemap.xml
images/FigR.PNG
images/PBMCs.png
images/skin.PNG
images/skinv2.png
inst/CITATION
man/cell_pairing.Rd man/centerCounts.Rd man/dorcJPlot.Rd man/extractTFNames.Rd
man/figures/FigR.PNG
man/figures/PBMCs.png
man/figures/skinv2.png
man/getDORCScores.Rd man/motifPeakZtest.Rd man/pairCells.Rd man/plotDrivers.Rd man/plotMarker2D.Rd man/plotPairs.Rd man/plotfigRHeatmap.Rd man/plotfigRNetwork.Rd man/rankDrivers.Rd man/runFigRGRN.Rd man/runGenePeakcorr.Rd man/smoothScoresNN.Rd man/splitAndFetch.Rd
vignettes/web_only/FigR_shareseq_tutorial.html
vignettes/web_only/FigR_stim_tutorial.html
buenrostrolab/FigR documentation built on Feb. 10, 2023, 11:26 a.m.