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MANIFEST
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MANIFEST
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.standardized
Build.PL
Changes
ignore.txt
INSTALL
lib/cworld/dekker.pm
LICENSE
MANIFEST This list of files
README
README.md
sample-data/addMatrixHeaders/5C.naked.matrix.gz
sample-data/addMatrixHeaders/5C.xHeaders.gz
sample-data/addMatrixHeaders/5C.yHeaders.gz
sample-data/addMatrixHeaders/K5.matrix.gz
sample-data/addMatrixHeaders/K5.transpose.matrix.gz
sample-data/addMatrixHeaders/readme
sample-data/aggregrateBED/chrX.bed.gz
sample-data/aggregrateBED/readme
sample-data/anchorPurge/readme
sample-data/applyCorrection/K5.allPrimerFactors
sample-data/applyCorrection/readme
sample-data/binMatrix/GM__30000__10.matrix.gz
sample-data/binMatrix/K5__30000__10.matrix.gz
sample-data/binMatrix/readme
sample-data/changeMatrixHeaders/K5.headers.map
sample-data/changeMatrixHeaders/readme
sample-data/collapseMatrix/chr14.bed
sample-data/collapseMatrix/NPC_chr14-chr15-chr16.matrix.gz
sample-data/collapseMatrix/NPC_chr14-chr15-chr16__chr14__chr14__cis.matrix.gz
sample-data/collapseMatrix/NPC_chr14-chr15-chr16__chr15__chr15__cis.matrix.gz
sample-data/collapseMatrix/NPC_chr14-chr15-chr16__chr16__chr16__cis.matrix.gz
sample-data/collapseMatrix/readme
sample-data/column2matrix/K5.pairwise.txt.gz
sample-data/column2matrix/K5.x.headers
sample-data/column2matrix/K5.y.headers
sample-data/column2matrix/readme
sample-data/combineMatrices/GM.matrix.gz
sample-data/combineMatrices/readme
sample-data/compareInsulation/N2.insulation.gz
sample-data/compareInsulation/readme
sample-data/compareInsulation/SRy93.insulation.gz
sample-data/compareMatrices/readme
sample-data/corrrelateMatrices/readme
sample-data/coverageCorrect/readme
sample-data/digitizePicture/K5.png
sample-data/digitizePicture/readme
sample-data/elementPileUp/enm009.bed
sample-data/elementPileUp/NPC_chrX.matrix.gz
sample-data/elementPileUp/readme
sample-data/elementPileUp/Xi-escapees.bed
sample-data/extractSubMatrix/readme
sample-data/fillMissingData/K5.loess
sample-data/fillMissingData/K5.loess.png
sample-data/fillMissingData/K5.outlierFiltered.matrix.gz
sample-data/fillMissingData/K5.outlierFiltered.png
sample-data/fillMissingData/K5.toRemove.txt
sample-data/fillMissingData/K5.zScore.matrix.gz
sample-data/fillMissingData/readme
sample-data/generateBins/readme
sample-data/heatmap/readme
sample-data/insulation2tads/NPC.boundaries.gz
sample-data/insulation2tads/NPC.insulation.gz
sample-data/insulation2tads/readme
sample-data/interactionPileUp/MeyersHiC-N2-DpnII.ce10.NA.H-10000-wDiag-noSS-iced.normalized.subset4000000__chrX__chrX__cis.matrix.gz
sample-data/interactionPileUp/MeyersHiC-N2-DpnII.ce10.NA.M-50000-wDiag-noSS-iced.matrix.normalized__chrX__chrX__cis.matrix.gz
sample-data/interactionPileUp/readme
sample-data/interactionPileUp/Top25RexPRex.bed
sample-data/matrix2anchorPlot/K5-highlight.matrix
sample-data/matrix2anchorPlot/readme
sample-data/matrix2bed12/readme
sample-data/matrix2compartment/readme
sample-data/matrix2direction/readme
sample-data/matrix2distance/readme
sample-data/matrix2headerBed/readme
sample-data/matrix2info/readme
sample-data/matrix2insulation/readme
sample-data/matrix2insulationRange/readme
sample-data/matrix2loess/readme
sample-data/matrix2pairwise/readme
sample-data/matrix2scaling/readme
sample-data/matrix2stacked/readme
sample-data/matrix2symmetrical/K5-highlight.symmetrical.matrix.gz
sample-data/matrix2symmetrical/readme
sample-data/matrix2webplot/readme
sample-data/normalizeMatrix/readme
sample-data/primer2plate/ALL_PRIMERS_ALS.txt
sample-data/reOrderMatrix/K5.for
sample-data/reOrderMatrix/K5.rev
sample-data/reOrderMatrix/K5__d52e3b901494.headers.bed
sample-data/reOrderMatrix/readme
sample-data/runTest.sh
sample-data/seperateMatrix/readme
sample-data/symmetrical2seperate/K5.symmetrical.matrix.gz
sample-data/tickPlot/chr14.bed
scripts/perl/addMatrixHeaders.pl
scripts/perl/aggregateBED.pl
scripts/perl/anchorPurge.pl
scripts/perl/applyCorrection.pl
scripts/perl/binMatrix.pl
scripts/perl/changeMatrixHeaders.pl
scripts/perl/collapseMatrix.pl
scripts/perl/column2matrix.pl
scripts/perl/combineMatrices.pl
scripts/perl/compareInsulation.pl
scripts/perl/compareMatrices.pl
scripts/perl/correlateMatrices.pl
scripts/perl/coverageCorrect.pl
scripts/perl/digitizePicture.pl
scripts/perl/elementPileUp.pl
scripts/perl/extractSubMatrices.pl
scripts/perl/fillMissingData.pl
scripts/perl/generateBins.pl
scripts/perl/heatmap.pl
scripts/perl/insulation2tads.pl
scripts/perl/interactionPileUp.pl
scripts/perl/matrix2anchorPlot.pl
scripts/perl/matrix2bed12.pl
scripts/perl/matrix2compartment.pl
scripts/perl/matrix2direction.pl
scripts/perl/matrix2distance.pl
scripts/perl/matrix2headerBed.pl
scripts/perl/matrix2info.pl
scripts/perl/matrix2insulation-lite.pl
scripts/perl/matrix2insulation.pl
scripts/perl/matrix2insulationRange.pl
scripts/perl/matrix2loess.pl
scripts/perl/matrix2pairwise.pl
scripts/perl/matrix2scaling.pl
scripts/perl/matrix2stacked.pl
scripts/perl/matrix2symmetrical.pl
scripts/perl/matrix2webplot.pl
scripts/perl/primer2plates.pl
scripts/perl/reOrderMatrix.pl
scripts/perl/scaleMatrix.pl
scripts/perl/singletonRemoval.pl
scripts/perl/subsetMatrix.pl
scripts/perl/symmetrical2seperate.pl
scripts/perl/tickPlot.pl
scripts/python/boundary2tad.py
scripts/python/compareBED.py
scripts/python/findTADs.py
scripts/python/getEigenVectors.py
scripts/python/matrix2correlation.py
scripts/python/matrix2EigenVectors.py
scripts/python/matrix2insulation-lite.py
scripts/python/matrix2tab.py
scripts/python/sampleHDF5.py
scripts/python/smoothImage.py
scripts/python/smoothMatrix.py
scripts/python/vec2mat.py
scripts/R/anchorIterativeCorrectionPlot.R
scripts/R/anchorPlot.R
scripts/R/barPlots.R
scripts/R/boxPlots.R
scripts/R/cisTrans.R
scripts/R/compareHistograms.R
scripts/R/compareInsulation.R
scripts/R/compareVectorHistograms.R
scripts/R/correlateList.R
scripts/R/correlateMatrices.R
scripts/R/correlateMatricesPerDistance.R
scripts/R/drawAnchorPlot.R
scripts/R/ecdf.R
scripts/R/factorHistogram.R
scripts/R/histogram.R
scripts/R/ksTest.R
scripts/R/loess.R
scripts/R/matrix2direction.R
scripts/R/matrix2insulation-lite.R
scripts/R/matrix2insulation.R
scripts/R/multiDensity.R
scripts/R/multiHistogram.R
scripts/R/plotBED.R
scripts/R/plotDistance.R
scripts/R/plotEigen.R
scripts/R/plotEVR.R
scripts/R/plotIQR.R
scripts/R/plotLoess.R
scripts/R/plotScaling.R
scripts/R/plotSTDEV.R
scripts/R/plotVariance.R
scripts/R/plotZscoreDist.R
scripts/R/scatterPlot.R
scripts/R/simpleHistogram.R
scripts/R/smoothData.R
scripts/R/stouffersMethod.R
scripts/R/tickPlot.R
scripts/R/tTest.R
scripts/R/zscore2pval.R
scripts/util/chrBounds/ce6_chromosome_coordinates.bed
scripts/util/chrBounds/hg18_chromosome_coordinates.bed
scripts/util/chrBounds/hg19_chromosome_coordinates.bed
scripts/util/chrBounds/mm9_chromosome_coordinates.bed
scripts/util/geneDensity/ce10.refseq.txt
scripts/util/geneDensity/galGal4.refseq.txt
scripts/util/geneDensity/hg18.refseq.txt
scripts/util/geneDensity/hg19.refseq.txt
scripts/util/geneDensity/mm9-cast-129s1.refseq.txt
scripts/util/geneDensity/mm9.refseq.txt
scripts/util/geneDensity/readme
scripts/util/geneDensity/sacCer3.refseq.txt