Progressivemauve

• addUnalignedIntervals(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• alignmentProjector(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• backbone_global_to_local(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• bbAnalyze(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• bbFilter(1) this is a part of mauveAligner package
• coordinateTranslate(1) part of mauveAligner package
• createBackboneMFA(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• extractBCITrees(1) part of mauveAligner package reads all trees and their posterior from a set of MrBayes .trprobs files
• getAlignmentWindows(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• getOrthologList(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• makeBadgerMatrix(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• mauveAligner(1) efficiently constructing multiple genome alignments
• mauveToXMFA(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• mfa2xmfa(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• progressiveMauve(1) efficiently constructing multiple genome alignments
• projectAndStrip(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• randomGeneSample(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• repeatoire(1) part of mauveAligner package
• scoreAlignment(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• stripGapColumns(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• stripSubsetLCBs(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• toGrimmFormat(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• toMultiFastA(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• toRawSequence(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• uniqueMerCount(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• uniquifyTrees(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of
• xmfa2maf(1) addUnalignedIntervals - part of mauveAligner package alignmentProjector - part of mauveAligner package backbone_global_to_local - part of