mirror of
https://git.FreeBSD.org/ports.git
synced 2024-12-21 04:06:46 +00:00
43397d188c
Update license message. Confirmed via conversation with UCSC that some proprietary code is used in the "free" tools build. UCSC is working on it.
137 lines
3.2 KiB
Plaintext
137 lines
3.2 KiB
Plaintext
bin/ucsc-shell
|
|
userapps/bin/aNotB
|
|
userapps/bin/addCols
|
|
userapps/bin/ave
|
|
userapps/bin/aveCols
|
|
userapps/bin/bamToPsl
|
|
userapps/bin/bedClip
|
|
userapps/bin/bedCommonRegions
|
|
userapps/bin/bedGeneParts
|
|
userapps/bin/bedGraphPack
|
|
userapps/bin/bedGraphToBigWig
|
|
userapps/bin/bedJoinTabOffset
|
|
userapps/bin/bedPileUps
|
|
userapps/bin/bedRemoveOverlap
|
|
userapps/bin/bedRestrictToPositions
|
|
userapps/bin/bedToBigBed
|
|
userapps/bin/bigBedInfo
|
|
userapps/bin/bigBedNamedItems
|
|
userapps/bin/bigBedSummary
|
|
userapps/bin/bigBedToBed
|
|
userapps/bin/bigWigAverageOverBed
|
|
userapps/bin/bigWigCat
|
|
userapps/bin/bigWigCluster
|
|
userapps/bin/bigWigCorrelate
|
|
userapps/bin/bigWigInfo
|
|
userapps/bin/bigWigMerge
|
|
userapps/bin/bigWigSummary
|
|
userapps/bin/bigWigToBedGraph
|
|
userapps/bin/bigWigToWig
|
|
userapps/bin/calc
|
|
userapps/bin/catDir
|
|
userapps/bin/catUncomment
|
|
userapps/bin/ccCp
|
|
userapps/bin/chopFaLines
|
|
userapps/bin/clusterMatrixToBarChartBed
|
|
userapps/bin/colTransform
|
|
userapps/bin/convolve
|
|
userapps/bin/countChars
|
|
userapps/bin/cpg_lh
|
|
userapps/bin/detab
|
|
userapps/bin/dnsInfo
|
|
userapps/bin/endsInLf
|
|
userapps/bin/faAlign
|
|
userapps/bin/faCmp
|
|
userapps/bin/faCount
|
|
userapps/bin/faFilter
|
|
userapps/bin/faFilterN
|
|
userapps/bin/faFlyBaseToUcsc
|
|
userapps/bin/faFrag
|
|
userapps/bin/faGapLocs
|
|
userapps/bin/faGapSizes
|
|
userapps/bin/faNcbiToUcsc
|
|
userapps/bin/faNoise
|
|
userapps/bin/faOneRecord
|
|
userapps/bin/faPolyASizes
|
|
userapps/bin/faRandomize
|
|
userapps/bin/faRc
|
|
userapps/bin/faRenameRecords
|
|
userapps/bin/faSimplify
|
|
userapps/bin/faSize
|
|
userapps/bin/faSomeRecords
|
|
userapps/bin/faSplit
|
|
userapps/bin/faToFastq
|
|
userapps/bin/faToNib
|
|
userapps/bin/faToTab
|
|
userapps/bin/faToTwoBit
|
|
userapps/bin/faTrans
|
|
userapps/bin/faTrimPolyA
|
|
userapps/bin/faTrimRead
|
|
userapps/bin/fastqStatsAndSubsample
|
|
userapps/bin/fastqToFa
|
|
userapps/bin/findMotif
|
|
userapps/bin/fixCr
|
|
userapps/bin/gapSplit
|
|
userapps/bin/gffPeek
|
|
userapps/bin/git-reports
|
|
userapps/bin/gmtime
|
|
userapps/bin/headRest
|
|
userapps/bin/htmlCheck
|
|
userapps/bin/htmlPics
|
|
userapps/bin/jkUniq
|
|
userapps/bin/lineCount
|
|
userapps/bin/linesToRa
|
|
userapps/bin/localtime
|
|
userapps/bin/mktime
|
|
userapps/bin/newProg
|
|
userapps/bin/newPythonProg
|
|
userapps/bin/nibFrag
|
|
userapps/bin/nibSize
|
|
userapps/bin/nt4Frag
|
|
userapps/bin/paraFetch
|
|
userapps/bin/paraSync
|
|
userapps/bin/pslLiftSubrangeBlat
|
|
userapps/bin/pslPosTarget
|
|
userapps/bin/pslRemoveFrameShifts
|
|
userapps/bin/pslScore
|
|
userapps/bin/pslToPslx
|
|
userapps/bin/pslToXa
|
|
userapps/bin/raSqlQuery
|
|
userapps/bin/raToLines
|
|
userapps/bin/raToTab
|
|
userapps/bin/randomLines
|
|
userapps/bin/rmFaDups
|
|
userapps/bin/rowsToCols
|
|
userapps/bin/scaffoldFaToAgp
|
|
userapps/bin/scrambleFa
|
|
userapps/bin/sizeof
|
|
userapps/bin/spacedToTab
|
|
userapps/bin/splitFile
|
|
userapps/bin/splitFileByColumn
|
|
userapps/bin/strexCalc
|
|
userapps/bin/stringify
|
|
userapps/bin/subChar
|
|
userapps/bin/subColumn
|
|
userapps/bin/subs
|
|
userapps/bin/tableSum
|
|
userapps/bin/tailLines
|
|
userapps/bin/textHist2
|
|
userapps/bin/textHistogram
|
|
userapps/bin/tickToDate
|
|
userapps/bin/toLower
|
|
userapps/bin/toUpper
|
|
userapps/bin/trackDbIndexBb
|
|
userapps/bin/twoBitDup
|
|
userapps/bin/twoBitInfo
|
|
userapps/bin/twoBitToFa
|
|
userapps/bin/udcCleanup
|
|
userapps/bin/undupFa
|
|
userapps/bin/upper
|
|
userapps/bin/vcfFilter
|
|
userapps/bin/venn
|
|
userapps/bin/verticalSplitSqlTable
|
|
userapps/bin/weedLines
|
|
userapps/bin/wigCorrelate
|
|
userapps/bin/wigToBigWig
|
|
userapps/bin/wordLine
|