Files in tdhock/PeakSegPipeline
Genome-Wide Peak Prediction Using Supervised Learning and Optimal Segmentation
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
NEWS
R/PeakSegFPOP.R
R/PeakSegJoint.R
R/bigwig.R
R/convert_labels.R
R/coverage.R
R/create_problems_joint.R
R/create_track_hub.R
R/denormalize.R
R/downloadBigWigs.R
R/downloadProblems.R
R/gap2problems.R
R/jobs.R
R/plot_all.R
R/system.or.stop.R
README.org
appveyor.yml
batchtools.conf.R
build.sh
data/Mono27ac.RData
inst/extdata/norm-big-coverage.bedGraph
inst/templates/slurm-afterok.tmpl
man/Mono27ac.Rd
man/PeakSegPipeline-package.Rd
man/bedGraphCoverage.Rd
man/bedGraphToBigWig.Rd
man/bigWigCoverage.Rd
man/bigWigInfo.Rd
man/bigWigToBedGraph.Rd
man/bigWigToBedGraphCommand.Rd
man/convert_labels.Rd
man/create_problems_joint.Rd
man/create_track_hub.Rd
man/denormalizeBedGraph.Rd
man/denormalizeBigWig.Rd
man/downloadBigWigs.Rd
man/downloadProblems.Rd
man/gap2problems.Rd
man/jobs_create.Rd
man/jobs_create_run.Rd
man/jobs_submit_batchtools.Rd
man/orderChrom.Rd
man/plot_all.Rd
man/problem.coverage.Rd
man/problem.features.Rd
man/problem.joint.Rd
man/problem.joint.plot.Rd
man/problem.joint.predict.Rd
man/problem.joint.predict.job.Rd
man/problem.joint.predict.many.Rd
man/problem.joint.target.Rd
man/problem.joint.targets.Rd
man/problem.joint.targets.train.Rd
man/problem.joint.train.Rd
man/problem.labels.Rd
man/problem.models.Rd
man/problem.pred.cluster.targets.Rd
man/problem.predict.Rd
man/problem.predict.allSamples.Rd
man/problem.table.Rd
man/problem.target.Rd
man/problem.tempfile.Rd
man/problem.train.Rd
man/psp_lapply.Rd
man/readBigWig.Rd
man/stop.without.ucsc.Rd
man/system.or.stop.Rd
man/ucsc.goldenPath.url.Rd
slurm.conf
src/coverage.cpp
src/coverage.h
src/denormalize.cpp
src/denormalize.h
src/interface.cpp
tests/testthat.R
tests/testthat/test-CRAN-bedGraphCoverage.R
tests/testthat/test-CRAN-convert-labels.R
tests/testthat/test-CRAN-gap2problems.R
tests/testthat/test-CRAN-target.R
tests/testthat/test-OTHER-bedGraphToBigWig.R
tests/testthat/test-OTHER-create-track-hub-jointpeaks.R
tests/testthat/test-OTHER-create-track-hub-nojointpeaks.R
tests/testthat/test-OTHER-joint.R
tests/testthat/test-pipeline-demo.R
tests/testthat/test-pipeline-input.R
tests/testthat/test-pipeline-noinput.R
