Legume Information System data sources for building LIS mines from the LIS datastore.
Abstract class extended by most LIS loaders. Contains method to read README files and includes BioStoreHook to associate DataSet.
Loads gene expression from LIS datastore /expression/ collections.
Loads DNA or amino acid data from LIS FASTA files: chromosomes, supercontigs, proteins, mRNA, CDSes, etc.
Loads LIS gene family identifiers and descriptions (but not the members).
Loads QTL/LG/marker data from LIS /genetic/ collections.
Loads LIS gene family associations from a gfa.tsv file in an /annotations/ collection.
Loads GFF data from a GFF3 file in an LIS /annotations/ collection.
Loads VCF genotyping data from an LIS /diversity/ collection.
Loads GWAS experiments from LIS /genetic/ collections.
Loads info-annot.tsv files from an LIS /annotations/ collection.
Loads synteny data from GFF files in an LIS /synteny/ collection.
Loads data from an LIS datastore pan-gene set hsh.tsv file, e.g. glysp.mixed.pan2.TV81.hsh.tsv.
Loads an InterPro GFF file from an LIS /annotations/ collection.
Loads genotyping study data from an MSTmap file (from UC-Riverside, mostly).
Loads gene pathway membership from an LIS /annotations/ collection.
Loads the LIS gene family phylotrees.