Man pages for heibl/polenta
Multiple Sequence Alignment with PASTA and GUIDANCE

align_part_setCo-optimal alignments from tree partitions
centroidDecompositionCentroid Decomposition of Phylogenetic Trees
confidence.heatmapPlot heatmap of cofidence on MSA
decomposePhyloRootedDecompose Phylogeny
deleteGapsRemove Gap Positions From DNA Sequences
equalSubtreesSplit Phylogeny Equally
extractMSAExtract Sequences from POLENTA Output
filterMSAFiltering of the base MSA using polenta scores
guidanceGUIDetree-based AligNment ConficencE
guidance2MSA reliability assessment GUIDANCE2 (Sela et al. 2015)
guidanceSAInterface to guidance program
HoTHeads or Tails Alignment Reliability
mafftSequence Alignment with MAFFT
msaBPBootstrap a Multiple Sequence Alignnment
msaBP_nj_treeGenerate NJ BP tree from MSA
msa_set_scoreRCompare reference MSAs with alternative MSAs
msa_set_scoreSACompare Reference MSAs with Alternative MSAs
partitionsCreate n-3 partitions from tree @export
pastaUltra-Large Multiple Sequence Alignment with PASTA
polentapolenta: PASTA Optimal confidENce Transivitiy Alignment
reappendScoresReappend Scores after Merging
rev_DNAReverse DNA Sequences of class DNAbin or AAbin
scoresScore Calculation
spanningTreeSpanning Tree for PASTA
transitivityMergeTransitivity Merge
heibl/polenta documentation built on Oct. 13, 2017, 9:39 p.m.