This directory contains applications for stand-alone use, built specifically for a Linux 64-bit machine. For help on the bigBed and bigWig applications see: http://genome.ucsc.edu/goldenPath/help/bigBed.html http://genome.ucsc.edu/goldenPath/help/bigWig.html View the file 'FOOTER.txt' to see the usage statement for each of the applications.
Name Last modified Size Description
Parent Directory - FOOTER 06-Jul-2017 09:31 226K FOOTER.txt 07-Feb-2017 16:01 219K addCols 06-Jul-2017 09:26 4.0M ameme 06-Jul-2017 09:31 4.6M autoDtd 06-Jul-2017 09:27 4.1M autoSql 06-Jul-2017 09:27 4.1M autoXml 06-Jul-2017 09:27 4.1M ave 06-Jul-2017 09:26 4.1M aveCols 06-Jul-2017 09:26 4.0M axtChain 06-Jul-2017 09:29 4.5M axtSort 06-Jul-2017 09:29 4.1M axtSwap 06-Jul-2017 09:29 4.1M axtToMaf 06-Jul-2017 09:29 4.1M axtToPsl 06-Jul-2017 09:29 4.3M bamToPsl 06-Jul-2017 09:26 4.3M bedClip 06-Jul-2017 09:26 4.1M bedCommonRegions 06-Jul-2017 09:26 4.0M bedCoverage 06-Jul-2017 09:29 16M bedExtendRanges 06-Jul-2017 09:30 16M bedGeneParts 06-Jul-2017 09:26 4.3M bedGraphPack 06-Jul-2017 09:26 4.0M bedGraphToBigWig 06-Jul-2017 09:26 4.2M bedIntersect 06-Jul-2017 09:27 4.1M bedItemOverlapCount 06-Jul-2017 09:27 16M bedJoinTabOffset 06-Jul-2017 09:23 4.3K bedPileUps 06-Jul-2017 09:26 4.0M bedRemoveOverlap 06-Jul-2017 09:26 4.0M bedRestrictToPositions 06-Jul-2017 09:26 4.0M bedSort 06-Jul-2017 09:27 4.3M bedToBigBed 06-Jul-2017 09:26 4.5M bedToExons 06-Jul-2017 09:29 4.2M bedToGenePred 06-Jul-2017 09:27 16M bedToPsl 06-Jul-2017 09:30 4.3M bedWeedOverlapping 06-Jul-2017 09:30 4.3M bigBedInfo 06-Jul-2017 09:26 4.4M bigBedNamedItems 06-Jul-2017 09:26 4.4M bigBedSummary 06-Jul-2017 09:26 4.4M bigBedToBed 06-Jul-2017 09:26 4.4M bigMafToMaf 06-Jul-2017 09:30 4.4M bigPslToPsl 06-Jul-2017 09:30 4.5M bigWigAverageOverBed 06-Jul-2017 09:26 4.5M bigWigCat 06-Jul-2017 09:26 4.2M bigWigCluster 06-Jul-2017 09:26 4.1M bigWigCorrelate 06-Jul-2017 09:26 4.5M bigWigInfo 06-Jul-2017 09:26 4.2M bigWigMerge 06-Jul-2017 09:26 4.2M bigWigSummary 06-Jul-2017 09:26 4.2M bigWigToBedGraph 06-Jul-2017 09:26 4.2M bigWigToWig 06-Jul-2017 09:26 4.2M blastToPsl 06-Jul-2017 09:27 4.1M blastXmlToPsl 06-Jul-2017 09:27 4.3M blat/ 06-Jul-2017 09:33 - calc 06-Jul-2017 09:26 4.0M catDir 06-Jul-2017 09:26 4.0M catUncomment 06-Jul-2017 09:26 4.0M chainAntiRepeat 06-Jul-2017 09:29 4.2M chainFilter 06-Jul-2017 09:29 4.1M chainMergeSort 06-Jul-2017 09:29 4.1M chainNet 06-Jul-2017 09:29 4.1M chainPreNet 06-Jul-2017 09:29 4.1M chainSort 06-Jul-2017 09:29 4.1M chainSplit 06-Jul-2017 09:29 4.1M chainStitchId 06-Jul-2017 09:29 4.1M chainSwap 06-Jul-2017 09:29 4.1M chainToAxt 06-Jul-2017 09:29 4.2M chainToPsl 06-Jul-2017 09:29 4.2M chainToPslBasic 06-Jul-2017 09:29 4.3M checkAgpAndFa 06-Jul-2017 09:28 4.2M checkCoverageGaps 06-Jul-2017 09:27 16M checkHgFindSpec 06-Jul-2017 09:27 16M checkTableCoords 06-Jul-2017 09:27 16M chopFaLines 06-Jul-2017 09:26 4.1M chromGraphFromBin 06-Jul-2017 09:30 16M chromGraphToBin 06-Jul-2017 09:30 16M colTransform 06-Jul-2017 09:26 4.0M countChars 06-Jul-2017 09:26 4.0M crTreeIndexBed 06-Jul-2017 09:30 4.1M crTreeSearchBed 06-Jul-2017 09:30 4.1M dbSnoop 06-Jul-2017 09:31 12M dbTrash 06-Jul-2017 09:28 16M estOrient 06-Jul-2017 09:28 16M expMatrixToBarchartBed 06-Jul-2017 09:23 14K faAlign 06-Jul-2017 09:26 4.1M faCmp 06-Jul-2017 09:26 4.1M faCount 06-Jul-2017 09:26 4.1M faFilter 06-Jul-2017 09:26 4.1M faFilterN 06-Jul-2017 09:26 4.3M faFrag 06-Jul-2017 09:26 4.1M faNoise 06-Jul-2017 09:26 4.1M faOneRecord 06-Jul-2017 09:26 4.0M faPolyASizes 06-Jul-2017 09:26 4.1M faRandomize 06-Jul-2017 09:26 4.1M faRc 06-Jul-2017 09:26 4.1M faSize 06-Jul-2017 09:26 4.1M faSomeRecords 06-Jul-2017 09:26 4.0M faSplit 06-Jul-2017 09:26 4.1M faToFastq 06-Jul-2017 09:26 4.1M faToTab 06-Jul-2017 09:26 4.1M faToTwoBit 06-Jul-2017 09:26 4.1M faTrans 06-Jul-2017 09:26 4.1M fastqStatsAndSubsample 06-Jul-2017 09:26 4.1M fastqToFa 06-Jul-2017 09:26 4.0M featureBits 06-Jul-2017 09:28 16M fetchChromSizes 06-Jul-2017 09:31 2.7K findMotif 06-Jul-2017 09:26 4.2M gapToLift 06-Jul-2017 09:30 16M genePredCheck 06-Jul-2017 09:28 16M genePredFilter 06-Jul-2017 09:30 16M genePredHisto 06-Jul-2017 09:28 16M genePredSingleCover 06-Jul-2017 09:28 16M genePredToBed 06-Jul-2017 09:28 16M genePredToBigGenePred 06-Jul-2017 09:30 16M genePredToFakePsl 06-Jul-2017 09:28 16M genePredToGtf 06-Jul-2017 09:28 16M genePredToMafFrames 06-Jul-2017 09:28 16M genePredToProt 06-Jul-2017 09:30 16M getRna 06-Jul-2017 09:28 16M getRnaPred 06-Jul-2017 09:28 16M gff3ToGenePred 06-Jul-2017 09:30 16M gff3ToPsl 06-Jul-2017 09:30 4.2M gmtime 06-Jul-2017 09:27 11K gtfToGenePred 06-Jul-2017 09:30 16M headRest 06-Jul-2017 09:27 4.0M hgFindSpec 06-Jul-2017 09:31 16M hgGcPercent 06-Jul-2017 09:31 16M hgLoadBed 06-Jul-2017 09:31 16M hgLoadChain 06-Jul-2017 09:31 16M hgLoadMaf 06-Jul-2017 09:31 16M hgLoadMafSummary 06-Jul-2017 09:31 16M hgLoadNet 06-Jul-2017 09:31 16M hgLoadOut 06-Jul-2017 09:31 16M hgLoadOutJoined 06-Jul-2017 09:31 16M hgLoadWiggle 06-Jul-2017 09:31 16M hgSpeciesRna 06-Jul-2017 09:28 16M hgTrackDb 06-Jul-2017 09:31 16M hgWiggle 06-Jul-2017 09:31 16M hgsql 06-Jul-2017 09:28 12M hgsqldump 06-Jul-2017 09:28 12M htmlCheck 06-Jul-2017 09:27 4.1M hubCheck 06-Jul-2017 09:30 27M hubPublicCheck 06-Jul-2017 09:30 16M ixIxx 06-Jul-2017 09:31 4.1M lavToAxt 06-Jul-2017 09:29 4.2M lavToPsl 06-Jul-2017 09:29 4.4M ldHgGene 06-Jul-2017 09:31 16M liftOver 06-Jul-2017 09:27 16M liftOverMerge 06-Jul-2017 09:27 4.2M liftUp 06-Jul-2017 09:27 16M linesToRa 06-Jul-2017 09:27 4.0M localtime 06-Jul-2017 09:27 11K mafAddIRows 06-Jul-2017 09:29 4.2M mafAddQRows 06-Jul-2017 09:29 4.1M mafCoverage 06-Jul-2017 09:29 16M mafFetch 06-Jul-2017 09:29 16M mafFilter 06-Jul-2017 09:29 4.1M mafFrag 06-Jul-2017 09:29 16M mafFrags 06-Jul-2017 09:30 16M mafGene 06-Jul-2017 09:30 16M mafMeFirst 06-Jul-2017 09:30 4.1M mafOrder 06-Jul-2017 09:30 4.1M mafRanges 06-Jul-2017 09:29 4.1M mafSpeciesList 06-Jul-2017 09:30 4.1M mafSpeciesSubset 06-Jul-2017 09:28 4.1M mafSplit 06-Jul-2017 09:30 4.4M mafSplitPos 06-Jul-2017 09:30 16M mafToAxt 06-Jul-2017 09:29 4.1M mafToBigMaf 06-Jul-2017 09:30 4.1M mafToPsl 06-Jul-2017 09:29 4.3M mafToSnpBed 06-Jul-2017 09:28 16M mafsInRegion 06-Jul-2017 09:28 4.4M makeTableList 06-Jul-2017 09:30 16M maskOutFa 06-Jul-2017 09:28 4.4M mktime 06-Jul-2017 09:27 11K mrnaToGene 06-Jul-2017 09:28 16M netChainSubset 06-Jul-2017 09:29 4.1M netClass 06-Jul-2017 09:29 16M netFilter 06-Jul-2017 09:29 4.1M netSplit 06-Jul-2017 09:29 4.1M netSyntenic 06-Jul-2017 09:29 4.1M netToAxt 06-Jul-2017 09:29 4.2M netToBed 06-Jul-2017 09:29 4.1M newProg 06-Jul-2017 09:27 4.0M newPythonProg 06-Jul-2017 09:27 4.0M nibFrag 06-Jul-2017 09:27 4.1M nibSize 06-Jul-2017 09:27 4.1M oligoMatch 06-Jul-2017 09:30 4.4M overlapSelect 06-Jul-2017 09:30 16M paraFetch 06-Jul-2017 09:27 4.1M paraSync 06-Jul-2017 09:27 4.1M positionalTblCheck 06-Jul-2017 09:30 16M pslCDnaFilter 06-Jul-2017 09:28 16M pslCat 06-Jul-2017 09:28 4.2M pslCheck 06-Jul-2017 09:28 16M pslDropOverlap 06-Jul-2017 09:28 4.2M pslFilter 06-Jul-2017 09:28 4.2M pslHisto 06-Jul-2017 09:28 4.2M pslLiftSubrangeBlat 06-Jul-2017 09:27 16M pslMap 06-Jul-2017 09:30 4.3M pslMapPostChain 06-Jul-2017 09:30 4.2M pslMrnaCover 06-Jul-2017 09:29 4.3M pslPairs 06-Jul-2017 09:28 4.3M pslPartition 06-Jul-2017 09:28 4.2M pslPosTarget 06-Jul-2017 09:27 4.2M pslPretty 06-Jul-2017 09:28 4.4M pslRecalcMatch 06-Jul-2017 09:28 4.4M pslReps 06-Jul-2017 09:28 4.2M pslScore 06-Jul-2017 09:27 4.2M pslSelect 06-Jul-2017 09:28 4.2M pslSort 06-Jul-2017 09:28 4.2M pslStats 06-Jul-2017 09:28 4.2M pslSwap 06-Jul-2017 09:28 4.2M pslToBed 06-Jul-2017 09:28 4.3M pslToBigPsl 06-Jul-2017 09:30 16M pslToChain 06-Jul-2017 09:29 4.3M pslToPslx 06-Jul-2017 09:27 4.4M pslxToFa 06-Jul-2017 09:29 4.2M qaToQac 06-Jul-2017 09:29 4.1M qacAgpLift 06-Jul-2017 09:29 4.2M qacToQa 06-Jul-2017 09:29 4.1M qacToWig 06-Jul-2017 09:29 4.1M raSqlQuery 06-Jul-2017 09:27 16M raToLines 06-Jul-2017 09:27 4.0M raToTab 06-Jul-2017 09:27 4.1M randomLines 06-Jul-2017 09:27 4.0M rmFaDups 06-Jul-2017 09:27 4.1M rowsToCols 06-Jul-2017 09:27 4.1M sizeof 06-Jul-2017 09:27 11K spacedToTab 06-Jul-2017 09:27 4.1M splitFile 06-Jul-2017 09:27 4.0M splitFileByColumn 06-Jul-2017 09:27 4.1M sqlToXml 06-Jul-2017 09:29 12M stringify 06-Jul-2017 09:26 4.0M subChar 06-Jul-2017 09:27 4.0M subColumn 06-Jul-2017 09:27 4.0M tabQuery 23-May-2017 15:11 4.1M tailLines 06-Jul-2017 09:27 4.0M tdbQuery 06-Jul-2017 09:30 16M textHistogram 06-Jul-2017 09:27 4.1M tickToDate 06-Jul-2017 09:27 4.0M toLower 06-Jul-2017 09:27 4.0M toUpper 06-Jul-2017 09:27 4.0M transMapPslToGenePred 06-Jul-2017 09:30 16M trfBig 06-Jul-2017 09:29 4.1M twoBitDup 06-Jul-2017 09:27 4.1M twoBitInfo 06-Jul-2017 09:27 4.1M twoBitMask 06-Jul-2017 09:30 4.4M twoBitToFa 06-Jul-2017 09:27 4.4M udr 18-May-2016 16:21 2.7M vai.pl 06-Jul-2017 09:23 11K validateFiles 06-Jul-2017 09:28 16M validateManifest 06-Jul-2017 09:28 4.1M wigCorrelate 06-Jul-2017 09:27 4.3M wigEncode 06-Jul-2017 09:31 3.9M wigToBigWig 06-Jul-2017 09:27 4.2M wordLine 06-Jul-2017 09:27 4.1M xmlCat 06-Jul-2017 09:29 4.1M xmlToSql 06-Jul-2017 09:29 4.1M