net.maizegenetics.pangenome.io

Class FastaIO

net.maizegenetics.pangenome.io.FastaIO

public class FastaIO

Method Detail

writeFasta

public static void writeFasta(@NotNull
                              java.util.Map<java.lang.String,? extends java.util.List<? extends java.util.List<? extends net.maizegenetics.pangenome.api.HaplotypeNode>>> paths,
                              @NotNull
                              java.lang.String filenameBase)

Writes the given paths to FASTA format. Multiple files written will include the taxon name and haplotype number. Include the method used to generate the paths in the filenameBase if desired. Each sequence is for a chromosome.

writeFasta

public static void writeFasta(@NotNull
                              java.lang.String taxon,
                              @NotNull
                              java.util.List<? extends net.maizegenetics.pangenome.api.HaplotypeNode> path,
                              @NotNull
                              java.lang.String filenameBase,
                              int haplotypeNum)

Writes the given path to FASTA format. filename will include the taxon name and haplotype number. Include the method used to generate the paths in the filenameBase if desired. Each sequence is for a chromosome.