Additional file 1: of The wright stuff: reimagining path analysis reveals novel components of the sex determination hierarchy in drosophila melanogaster

Table S1. Structural equation modeling measures of overall model fit. Adapted from (Hoyle). Table S2. DSPR no covariance raw residual matrix of genes in the sex hierarchy GRN. Table S3. CEGS no covariance raw residual matrix of genes in the sex hierarchy GRN. Table S4. New links added between genes in the DSPR sex hierarchy GRN. Table S5. New links added between genes in the CEGS sex hierarchy GRN. Table S6. Gene added to the CEGS sex hierarchy GRN. Table S7. Number of alleles per gene of the sex determination hierarchy in a random 50 % subset of CEGS lines. Table S8. Genes added to the sex hierarchy GRN that showed enrichment for chromatin binding and helicase activity. Table S9. DSPR isoform level factor analysis. Table S10. DSPR gene level factor analysis. Table S11. CEGS exonic regions factor analysis. Table S12. CEGS gene level factor analysis. Table S13. DSPR isoform level modulated modularity clustering (MMC). Table S14. CEGS exon level modulated modularity clustering (MMC). Figure S1. Graphical Gaussian network of genes in the sex determination hierarchy (DSPR Collapsed Isoforms). Figure S2. Examples of secondary neighborhood structure from a genome-wide graphical Gaussian network. Figure S3. Distribution of genes in the sex hierarchy. Figure S4. Correlation and covariance matrices for genes in the sex hierarchy. (DOCX 1153 kb)

Additional file 3: of SECIMTools: a suite of metabolomics data analysis tools

Mahalanobis Distance calculation. (PDF 102 kb

Additional file 2: of SECIMTools: a suite of metabolomics data analysis tools

Example input and output. (DOCX 3818 kb