alignment.reference.remove: alignment.reference.remove removes sequences
In lliu1871/phybase: Basic functions for phylogenetic analysis
alignment.reference.remove R Documentation
alignment.reference.remove removes sequences
Description
This function removes sequences whose branch lengths in the fitted reference tree is 5 times greater than the corresponding branch lengths in the reference tree. The new alignments are saved in the files .removed.
Usage
alignment.reference.remove(path_raxml = "raxmlHPC", seqfiles, nconcatgene)
Arguments
path_raxml
the full path of program raxml
seqfiles
the input sequence files
nconcatgene
the number of genes used for building the concatenation tree
Author(s)
Liang Liu
lliu1871/phybase documentation built on April 21, 2024, 3:16 a.m.
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| alignment.reference.remove | R Documentation |
alignment.reference.remove removes sequences
Description
This function removes sequences whose branch lengths in the fitted reference tree is 5 times greater than the corresponding branch lengths in the reference tree. The new alignments are saved in the files .removed.
Usage
alignment.reference.remove(path_raxml = "raxmlHPC", seqfiles, nconcatgene)
Arguments
path_raxml |
the full path of program raxml |
seqfiles |
the input sequence files |
nconcatgene |
the number of genes used for building the concatenation tree |
Author(s)
Liang Liu
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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