Man pages for OthoMantegazza/crossr
Functions For Cross Species Quantitative Transcriptomics
| 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 |
