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Fixed test abd updated struct functions #53

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Merged
merged 7 commits into from
Aug 16, 2024
Merged

Fixed test abd updated struct functions #53

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c0a02d6
created encode_geneotype function and updated get_geno NEED to change…
GregFa Aug 14, 2024
38b1321
corrected testing function for struct, corrected function to get gmap…
GregFa Aug 15, 2024
a8a9492
updated struct and get struct
GregFa Aug 15, 2024
3fdc609
fixed tests and added test_gf.jl
GregFa Aug 16, 2024
67759b2
fixed until plotting test
GregFa Aug 16, 2024
a28a9f1
added Plots in test
GregFa Aug 16, 2024
c0d9c28
added using Plots in test
GregFa Aug 16, 2024
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3 changes: 2 additions & 1 deletion Project.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -29,7 +29,8 @@ julia = "1"

[extras]
DelimitedFiles = "8bb1440f-4735-579b-a4ab-409b98df4dab"
Plots = "91a5bcdd-55d7-5caf-9e0b-520d859cae80"
Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"

[targets]
test = ["DelimitedFiles", "Test"]
test = ["DelimitedFiles", "Plots", "Test"]
9 changes: 7 additions & 2 deletions src/BigRiverQTL.jl
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Expand Up @@ -7,6 +7,7 @@ module BigRiverQTL

using Reexport
@reexport import BigRiverQTLPlots: plot_QTL, plot_eQTL, plot_manhattan
@reexport import BulkLMM: scan


########
Expand Down Expand Up @@ -54,15 +55,20 @@ module BigRiverQTL
# Structure #
#############
include("struct/datastructure.jl")
export Gmap, Alleles, CrossType, GenoType, GenoTranspose,Geno, Pmap, Pheno, Phenocov, IsFemale, IsXChar, CrossInfo
export Gmap, Alleles, CrossType, GenoType, GenoTranspose, Geno, Pmap
export Pheno, Phenocov, IsFemale, IsXChar, CrossInfo
export GeneticStudyData

######
# IO #
######
include("io/io_utils.jl")
export get_control_file, encode_genotype
include("io/export_to_type.jl")
export get_geneticstudydata
export get_gmap, get_alleles, get_chromosome, get_crossinfo, get_crosstype
export get_geno, get_genotype, get_genotranspose, get_pmap
export get_phenocovar, get_pheno, get_isxchar

#########
# Plots #
Expand All @@ -76,7 +82,6 @@ module BigRiverQTL
include("plots/plots_manhattan.jl")
export plot_manhattan


include("plots/plots_eqtl.jl")
export plot_eQTL

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