binary_coding | Code genotypes as binary |
CO | Where crossovers occur per individual with 2 ways to deal... |
convert2qtl_table | write out table for import into rqtl |
count_CO | Internal function to remove search and remove columns based... |
genotypeR-class | Class genotypeR. |
genotypes_data | Genotyping data from the sequenom platform from markers... |
GoldenGate2iCOM_design | Output GoldenGate markers for assay development with illumina... |
grep_df_subset | Internal function to remove search and remove columns based... |
Heterogametic_Genotype_Warnings | Heterogametic warnings |
illumina_Genotype_Table | Make genotypeR Alt_Ref_Table |
initialize_genotypeR_data | initialize_genotypeR_data; must provide warning allele |
make_marker_names | Make genotypeR compliant marker names from the output of... |
markers | Marker data produced with genotypeR |
read_in_illumina_GoldenGate | Read in Illumina GoldenGate AB tab delimited text file |
read_in_Master_SNPs_data | Read in GrandMasterSNPs output |
read_in_sequenom_data | Read in Sequenom Data |
Ref_Alt_Table | Make reference/alternate allele table from make_marker_names... |
SequenomMarkers | R wrapper script to run Sequenom Marker design pipeline |
sort_sequenom_df | Sequenom Data frame Sort |
subsetChromosome | Subset genotypeR object by chromosome |
zero_one_two_coding | Code genotypes as 0, 1, 2 |
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