add_fit | Estimates and Add F-values from a Linear Model to an og_set... |
check_ogset | Check Validity of an 'ogset' class element |
collapse_orthologs | Sum Expression of Orthologs in an ogset class elements |
explore_ogroups | Plot an Histogram of Orthogroup Dimension |
get_df | Returns a Tidy Dataset in Long Format with the Expression,... |
get_gene_df | For all Genes in One Orthogroup, Returns a Tidy Dataset in... |
get_top_tags | Extract Top Tags from Ogset Class Element |
get_TPM | Extracts TPM from a Salmon Output File |
ggplot_all_stages | Plot the Expression of One Orthogroup in Both Species with... |
ggplot_ogroup_genes | Plot the Expression of all Genes within one Orthogroup with... |
make_fit | Calculate F-values from a Linear Model on an Orthogroup... |
make_TPM_df | Make Expression Matrix from All Salmon Output Folders |
ogset-class | S4 Class, Container for Ortholog Expression Data |
parse_orthogroups | Parse and Load an Orthogroup CSV File Provided by Orthofinder |
plot_all_stages | Plot the Expression of One Orthogroup in Both Species |
plot_og_genes | Plot the Expression of all Genes within one Orthogroup |
sum_groups | Sum Expression of Orthologs |
switch_ids | Utility for Converting Ids |
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