Files in misha
Toolkit for Analysis of Genomic Data

MD5

NAMESPACE

DESCRIPTION

LICENSE

R/track-var.R R/sequence.R R/intervals-annotation.R R/compute-analysis.R R/compute-utils.R R/db-cache.R R/misha-package.R R/track-modify.R R/db-create.R R/utils-pipe.R R/intervals-management.R R/intervals-tracks.R R/ftp.R R/track-create.R R/track-liftover.R R/pssm_utils.R R/intervals-operations.R R/db-management.R R/utils-memory.R R/track-convert.R R/db-dir.R R/compute-bins.R R/compute-core.R R/intervals-utils.R R/track-management.R R/vtrack.R R/neighbors.R R/compute-partition.R R/track-2d.R R/compute-distribution.R R/compute-sequence.R R/intervals-load-save.R R/db-core.R R/db-attrs.R R/zzz.R R/db-root.R R/track-attr.R R/intervals-liftover.R R/track-array.R R/intervals-core.R R/intervals-bigset.R R/intervals-iterator.R R/db-index.R R/track-import.R R/utils.R R/track-core.R

src/GenomeTrackInMemory.cpp

src/GenomeTrackFixedBin.cpp

src/GenomeTrackExtract.cpp

src/GenomeTrackSparse.cpp

src/DnaPSSM.h

src/Random.h

src/TGLException.h

src/GIntervalsSet.h

src/GInterval.cpp

src/GenomeIndex.cpp

src/TrackExpressionTrackRectsIterator.cpp

src/ConfigurationManager.h

src/rdbutils.h

src/GenomeTrack2DCreate.cpp

src/TrackExpressionSparseIterator.h

src/TrackExpressionBigSet2DIterator.h

src/Computer2D.h

src/Makevars

src/SegmentFinder.h

src/StreamSampler.h

src/IntervalConverter.h

src/GenomeTrackComputed.cpp

src/PssmSet.cpp

src/BinsManager.cpp

src/TrackIndex.cpp

src/port.h

src/GenomeTrackFixedBin.h

src/TrackExpressionBigSet1DIterator.cpp

src/TrackExpressionCartesianGridIterator.h

src/GIntervalsSet2D.h

src/TrackExpressionScanner.h

src/GIntervalsMeta2D.h

src/GTrackIntervalsFetcher.h

src/Filter.h

src/GenomeChromKey.h

src/DataFrameUtils.h

src/GenomeTrackBinnedTransform.cpp

src/GenomeTrack1D.h

src/GIntervals.h

src/StatQuadTreeCached.h

src/GenomeTrackImportMappedseq.cpp

src/GenomeCreatePwmEnergy.cpp

src/rdbinterval.h

src/IntervVarProcessor.cpp

src/TGLException.cpp

src/GenomeTrackArrays.h

src/TrackExpressionVars.cpp

src/GenomeTrackComputed.h

src/BufferedFile.h

src/TrackExpressionIntervals1DIterator.cpp

src/GenomeTrackArrayImport.cpp

src/CRC64.h

src/MaskedBpCounter.h

src/TrackExpressionFixedBinIterator.h

src/AggregationHelpers.h

src/GenomeUtils.h

src/IntervalsIndex2D.h

src/IntervalConverter.cpp

src/GseqString.cpp

src/util.h

src/TrackExpressionFixedBinIterator.cpp

src/GenomeTrackCreateDense.cpp

src/StatQuadTreeCachedSerializer.h

src/GIntervalsBigSet2D.h

src/GenomeTrackInMemory.h

src/GenomeTrackArrays.cpp

src/GenomeTrackIndexedFormat.cpp

src/rdbutils.cpp

src/System.h

src/GenomeSeqRead.cpp

src/GenomeTrackSmooth.cpp

src/misha-init.cpp

src/GInterval2D.cpp

src/GenomeTrackDistribution.cpp

src/GenomeIteratorIntervals.cpp

src/GenomeTrackFindNeighbors.cpp

src/TrackExpressionIntervals2DIterator.h

src/Filter.cpp

src/GTrackLiftover.cpp

src/TrackExpressionIntervals1DIterator.h

src/TrackExpressionBigSet1DIterator.h

src/TrackIndex.h

src/DataFrameUtils.cpp

src/SequenceVarProcessor.cpp

src/MaskedBpCounter.cpp

src/TrackExpressionIterator.h

src/GenomeTrackPartition.cpp

src/GIntervals2D.cpp

src/Segment.h

src/GIntervalsFetcher1D.h

src/GenomeCisDecay.cpp

src/TrackExpressionFixedRectIterator.h

src/GenomeSeqScorer.h

src/TrackExpressionBigSet2DIterator.cpp

src/GIntervalsMeta1D.cpp

src/BinFinder.cpp

src/GIntervalsFetcher1D.cpp

src/GIntervalsBigSet1D.h

src/HashFunc.h

src/DnaPSSM.cpp

src/GenomeTrackSegmentation.cpp

src/FilterRegistry.h

src/GenomeSeqImport.cpp

src/GenomeSeqMultiImport.cpp

src/Rectangle.h

src/ValueVarProcessor.h

src/SequenceVarProcessor.h

src/strutil.cpp

src/GenomeTrackQuantiles.cpp

src/PssmSet.h

src/GenomeTrackSparse.h

src/RandomShuffle.h

src/GIntervalsFetcher2D.h

src/GenomeTrackConvert.cpp

src/rtest.cpp

src/TrackExpressionCartesianGridIterator.cpp

src/HiCComputers.cpp

src/FilterInterface.cpp

src/IntervalsIndexedFormat.cpp

src/IntervalsImport.cpp

src/TrackExpressionVars.h

src/Point.h

src/GTrackIntervalsFetcher1D.h

src/GIntervalsMeta1D.h

src/GenomeUtilsR.cpp

src/GInterval2D.h

src/TrackExpressionFixedRectIterator.cpp

src/ChainIntervalConverter.cpp

src/HiCComputers.h

src/TrackExpressionParams.h

src/GTrackIntervalsFetcher.cpp

src/GenomeTrackInfo.cpp

src/DiagonalBand.h

src/GenomeSeqFetch.cpp

src/KmerCounter.h

src/GenomeTrackSummary.cpp

src/GenomeComputeStrandAutocorr.cpp

src/Thread.h

src/GIntervalsBigSet.cpp

src/IncrementalWilcox.h

src/PwmCoreParams.cpp

src/GenomeTrack2D.h

src/GenomeTrackCreate.cpp

src/rdbprogress.h

src/GenomeTrackRects.h

src/GenomeTrackModify.cpp

src/GIntervalsMeta.h

src/GenomeTrackCreateComputer2dTest.cpp

src/GIntervalsBigSet1D.cpp

src/GenomeTrackImportWig.cpp

src/GIntervalsBigSet.h

src/GenomeSeqFetch.h

src/ChainIntervalConverter.h

src/PwmCoreParams.h

src/GenomeTrackCreateSparse.cpp

src/TrackExpressionScanner.cpp

src/GenomeUtils.cpp

src/IntervalsLiftover.cpp

src/IntervalsIndex1D.cpp

src/rdbinterval.cpp

src/strutil.h

src/GenomeTrackSampler.cpp

src/rdbprogress.cpp

src/ConfigurationManager.cpp

src/GIntervalsFetcher.h

src/config.h

src/GIntervalsMeta.cpp

src/version.cpp

src/GenomeArraysCsv.h

src/StatQuadTree.h

src/IntervalsIndex2D.cpp

src/IntervalValidator.cpp

src/Computer2D.cpp

src/IncrementalWilcox.cpp

src/GIntervals.cpp

src/GTrackIntervalsFetcher2D.h

src/KmerCounter.cpp

src/IntervalsIndex1D.h

src/GenomeTrack.h

src/GenomeIntervalUtils.cpp

src/TrackVars.cpp

src/BinFinder.h

src/Matrix.h

src/GenomeSeqScorer.cpp

src/GenomeTrackWilcox.cpp

src/BinsManager.h

src/FilterRegistry.cpp

src/GTrack2DImport.cpp

src/RaList.h

src/IntervalValidator.h

src/GIntervalsFetcher2D.cpp

src/Wig.h

src/GIntervalsMeta2D.cpp

src/GenomeTrackApply.cpp

src/ValueVarProcessor.cpp

src/GInterval.h

src/GenomeTrack.cpp

src/System.cpp

src/GenomeIndex.h

src/TrackExpressionIntervals2DIterator.cpp

src/TrackExpressionTrackRectsIterator.h

src/GenomeArraysCsv.cpp

src/TrackExpression2DIterator.h

src/GTrack2DImportContacts.cpp

src/GenomeTrack2D.cpp

src/Chain2Interval.cpp

src/IntervVarProcessor.h

src/StreamPercentiler.h

src/FindTracksNIntervals.cpp

src/GenomeTrackScreener.cpp

src/GIntervalsSetBig.h

src/TrackExpressionSparseIterator.cpp

src/TrackVarProcessor.h

src/GenomeTrackArrayExtract.cpp

src/GIntervals2D.h

src/TrackVarProcessor.cpp

src/GIntervalsBigSet2D.cpp

src/TrackExpressionIteratorBase.cpp

src/TrackExpressionIteratorBase.h

src/PWMScorer.cpp

src/GenomeCheckVtrack.cpp

src/PWMScorer.h

src/BufferedFile.cpp

src/Wig.cpp

src/utils/RunningLogSumExp.h

src/utils/RunningMaxDeque.h

inst/bigWigToWig.tar.gz

inst/WORDLIST

inst/testdb.tar.gz

inst/doc/Genomes.html

inst/doc/Database-Formats.R inst/doc/Genomes.Rmd

inst/doc/Database-Formats.html

inst/doc/Genomes.R inst/doc/Manual.Rmd inst/doc/Database-Formats.Rmd

inst/doc/Manual.html

inst/doc/Manual.R

build/vignette.rds

exec/sgjob.sh

man/gdir.rm.Rd man/gdb.init.Rd man/directional-neighbors.Rd man/gquantiles.Rd man/gdir.cwd.Rd man/gdb.info.Rd man/gvtrack.array.slice.Rd man/gintervals.mark_overlaps.Rd man/gintervals.chrom_sizes.Rd man/gtrack.2d.import_contacts.Rd man/gtrack.convert_to_indexed.Rd man/gintervals.mapply.Rd man/gcompute_strands_autocorr.Rd man/misha-package.Rd man/gtrack.create_dense.Rd man/gintervals.neighbors.Rd man/gintervals.save.Rd man/gtrack.modify.Rd man/dot-misha.Rd man/grevcomp.Rd man/gtrack.smooth.Rd man/gintervals.ls.Rd man/gdb.reload.Rd man/gscreen.Rd man/gtrack.attr.export.Rd man/gintervals.2d.Rd man/gcis_decay.Rd man/gvtrack.info.Rd man/gextract.Rd man/gdir.cd.Rd man/gdir.create.Rd man/giterator.cartesian_grid.Rd man/gwilcox.Rd man/gintervals.convert_to_indexed.Rd man/gintervals.update.Rd man/gdist.Rd man/gbins.summary.Rd man/gtrack.var.set.Rd man/gintervals.load.Rd man/gdb.create.Rd man/gintervals.2d.band_intersect.Rd man/gseq.extract.Rd man/gtrack.import.Rd man/gintervals.rm.Rd man/gtrack.import_set.Rd man/gbins.quantiles.Rd man/gintervals.summary.Rd man/gseq.pwm.Rd man/gintervals.as_chain.Rd man/gintervals.random.Rd man/gtrack.create_sparse.Rd man/gvtrack.create.Rd man/gtrack.info.Rd man/gpartition.Rd man/gintervals.liftover.Rd man/giterator.intervals.Rd man/gtrack.2d.import.Rd man/gdb.convert_to_indexed.Rd man/gintervals.covered_bp.Rd man/gintervals.union.Rd man/glookup.Rd man/gvtrack.iterator.Rd man/gvtrack.filter.Rd man/gtrack.array.import.Rd man/gtrack.array.set_colnames.Rd man/gintervals.2d.convert_to_indexed.Rd man/gtrack.array.get_colnames.Rd man/gwget.Rd man/gintervals.exists.Rd man/gtrack.import_mappedseq.Rd man/gtrack.attr.set.Rd man/gintervals.canonic.Rd man/pipe.Rd man/gseq.revcomp.Rd man/gintervals.all.Rd man/gdb.mark_cache_dirty.Rd man/gvtrack.iterator.2d.Rd man/gtrack.lookup.Rd man/gtrack.rm.Rd man/gsegment.Rd man/gintervals.rbind.Rd man/gseq.rev.Rd man/gtrack.2d.create.Rd man/gtrack.var.get.Rd man/gsample.Rd man/gseq.comp.Rd man/gcluster.run.Rd man/gintervals.coverage_fraction.Rd man/gseq.kmer.Rd man/gsummary.Rd man/gtrack.create_pwm_energy.Rd man/gtrack.attr.import.Rd man/gvtrack.ls.Rd man/gtrack.attr.get.Rd man/gintervals.is.bigset.Rd man/gdb.get_readonly_attrs.Rd man/gintervals.path.Rd man/gintervals.load_chain.Rd man/gtrack.array.extract.Rd man/gdb.set_readonly_attrs.Rd man/gtrack.liftover.Rd man/gtrack.var.rm.Rd man/gintervals.2d.all.Rd man/gtrack.var.ls.Rd man/gintervals.diff.Rd man/gtrack.exists.Rd man/gvtrack.rm.Rd man/gdb.create_genome.Rd man/gtrack.create.Rd man/gtrack.create_dirs.Rd man/gtrack.path.Rd man/gintervals.quantiles.Rd man/gintervals.intersect.Rd man/gintervals.force_range.Rd man/gintervals.normalize.Rd man/gintervals.import_genes.Rd man/gintervals.Rd man/gtrack.ls.Rd man/gtrack.convert.Rd man/gintervals.annotate.Rd

misha documentation built on Dec. 14, 2025, 9:06 a.m.

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misha
Toolkit for Analysis of Genomic Data

Files in misha
Toolkit for Analysis of Genomic Data

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misha Toolkit for Analysis of Genomic Data

Files in misha Toolkit for Analysis of Genomic Data

R Package Documentation

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misha
Toolkit for Analysis of Genomic Data

Files in misha
Toolkit for Analysis of Genomic Data