Files in jakeyeung/Circadian4Cseq

.Rbuildignore

.gitignore

DESCRIPTION

NAMESPACE

R/AssayFunctions.R R/BedGraphFunctions.R R/BiomartFunctions.R R/ChowTest.R R/CisTransFunctions.R

R/ColorFunctions.R

R/CosSineFunctions.R R/DatFunctions.R R/DeseqFunctions.R R/DoDESEQ.R R/FindPeaks.R R/FitRhythmic4CSmoothed.R R/FitRhythmicAssays.R R/GetBaitLocations.R R/IntegrateFunctions.R R/ListFunctions.R R/LoadNormalizationOutputs.R R/LoadRobjPlotSummary.R R/MathFunctions.R R/MergeCounts.R R/NcondsAssaysFunctions.R R/PlotFunctions.R R/PlotGeneAcrossTissues.R R/Queue.R R/RFuncs.R R/RNASeqFunctions.R R/RawCountsFunctions.R R/RawDataFunctions.R R/SvdFunctions.R R/TADFunctions.R R/TrackHubFunctions.R R/data.R README.R README.md animate_circadian_4cseq_again.R animate_circadian_4cseq_again.md

data/Bmal1_TSS.normmax.Inf.log.FALSE.nfrags.5.remove.auto.sig.2500.Robj.RData

data/Cry1.normmax.Inf.log.FALSE.nfrags.5.remove.auto.sig.2500.Robj.RData

data/Cry1_TSS.normmax.Inf.log.FALSE.nfrags.5.remove.auto.sig.2500.Robj.RData

data/Cry1_UP.normmax.Inf.log.FALSE.nfrags.5.remove.auto.sig.2500.Robj.RData

data/Gys2_Exon8.normmax.Inf.log.FALSE.nfrags.5.remove.auto.sig.2500.Robj.RData

data/Gys2_TSS.normmax.Inf.log.FALSE.nfrags.5.remove.auto.sig.2500.Robj.RData

data/Hoxd4.normmax.Inf.log.FALSE.nfrags.5.remove.auto.sig.2500.Robj.RData

data/Per1_TSS.normmax.Inf.log.FALSE.nfrags.5.remove.auto.sig.2500.Robj.RData

data/Per2_TSS.normmax.Inf.log.FALSE.nfrags.5.remove.auto.sig.2500.Robj.RData

data/bait_locations_batches_1-2-3.RData

data/bait_locations_batches_1-2.RData

data/counts.long.delt.lk.LR.RData

data/counts.long.delt.lk.LR.batch_1_2.RData

data/counts.long.merged.Robj.RData

gifs_outputs/KO_animate.20.gif

gifs_outputs/KO_animate.40.gif

gifs_outputs/KO_animate.gif

gifs_outputs/KO_plot.fps.10.gif

gifs_outputs/KO_plot.fps.100.gif

gifs_outputs/KO_plot.fps.22.fixed.11.75.gif

gifs_outputs/KO_plot.fps.22.fixed_rotated.11.5.gif

gifs_outputs/KO_plot.fps.25.fixed.gif

gifs_outputs/KO_plot.fps.25.fixed.newcolor.gif

gifs_outputs/KO_plot.fps.40.gif

gifs_outputs/KO_plot.fps.41.fixed.gif

gifs_outputs/KO_plot.fps.88.gif

gifs_outputs/WT_animate.20.gif

gifs_outputs/WT_animate.40.gif

gifs_outputs/WT_animate.gif

gifs_outputs/WT_plot.fps.10.gif

gifs_outputs/WT_plot.fps.100.gif

gifs_outputs/WT_plot.fps.22.fixed.11.75.gif

gifs_outputs/WT_plot.fps.22.fixed_rotated.11.5.gif

gifs_outputs/WT_plot.fps.25.fixed.gif

gifs_outputs/WT_plot.fps.25.fixed.newcolor.gif

gifs_outputs/WT_plot.fps.40.gif

gifs_outputs/WT_plot.fps.41.fixed.gif

gifs_outputs/WT_plot.fps.88.gif

gifs_outputs/animate.gif

gifs_outputs/phase_entrainment.K.0.5.frames.250.gif

gifs_outputs/phase_entrainment.K.0.5.frames.250Phis22.19.gif

gifs_outputs/phase_entrainment.gif

gifs_outputs/phase_entrainment.shape.K.0.5.frames.300Phis22.19.gif

gifs_outputs/phase_freerunning.merged.nframes.250Tphi1Tphi2.23.22.5.gif

gifs_outputs/phase_freerunning.merged.nframes.300Tphi1Tphi2.23.22.5.gif

gifs_outputs/phase_freerunning.merged.nframes.300Tphi1Tphi2.23.22.5.moreframes.gif

gifs_outputs/phase_freerunning.nframes.250.gif

gifs_outputs/phase_freerunning.nframes.250.short.gif

gifs_outputs/phase_freerunning.nframes.250Tphi1Tphi2.2322.5.gif

gifs_outputs/phase_freerunning.nframes.300Tphi1Tphi2.23.22.5.gif

inst/extdata/batch1.batch2.baits.bed

inst/extdata/batch1_2_3.runs_1_to_6.bed

load_and_plot_data.R load_and_plot_data.md

load_and_plot_data_files/figure-markdown_strict/unnamed-chunk-2-1.png

load_and_plot_data_files/figure-markdown_strict/unnamed-chunk-2-2.png

load_and_plot_data_files/figure-markdown_strict/unnamed-chunk-2-3.png

load_and_plot_data_files/figure-markdown_strict/unnamed-chunk-2-4.png

load_and_plot_data_files/figure-markdown_strict/unnamed-chunk-2-5.png

load_and_plot_data_files/figure-markdown_strict/unnamed-chunk-2-6.png

load_and_plot_data_files/figure-markdown_strict/unnamed-chunk-2-7.png

man/hello.Rd primetime_animations/animate_around_the_clock.R primetime_animations/animate_phase_entrainment.R

jakeyeung/Circadian4Cseq documentation built on Aug. 7, 2020, 8 p.m.