Man pages for Busydog1990/genepro
CProtMEDIAS: clustering of amino acid sequences encoded by gene families by MErging and DIgitizing Aligned Sequences
| cluster_scatter | Scatter plot for genes |
| combine_alignment | Combine multiple alignment results according to the distance... |
| constructingNetwork | Getting gene lineage from score matrix. |
| edmonds | Getting circuit with min dist. |
| find_ckt_edges_to_add | Getting circuit with min dist. |
| finde0e1 | Extract the weight of the end node of edges which are in... |
| find_Specific_site | Find specific sites for each gene family. |
| get_alignment_score | Calculate score of each site in alignment |
| get_bits | Get bits of each site. |
| get_seq_conservation | Get sequence conservation of each site. |
| get_seq_percent | Calculate the Percent matrix of each site. |
| group_alignment | Combine two alignment results. |
| Homeobox_align | Multiple sequences alignment of homeobox transcription factor... |
| Homeobox_annot | Annotation of DNA binding domain of homeobox transcription... |
| import_metadata | import metadata from data frame |
| index_of_max_value_incoming_edge | Get max value incoming edge and its index from edge matrix. |
| iscycle | Get shortest paths from edge matrix. |
| MDST_plot | MDST Network visualization with igraph |
| monocle_import | Import a seurat or scatter/scran CellDataSet object and... |
| monocle_workflow | Dimensionality reduction, classification and pseudotime... |
| multiple_group_scatter | Scatter plot for genes belonging to multiple gene families |
| Position_site_heatmap | Heatmap for specific site of each family |
| Position_site_plot | Draw a rectangle to reflect the specific site of each family. |
| position_site_weblogo | weblogo for specific site of each family |
| reconstruct_2 | Getting circuit with min dist. |
| relabelgraph | obtaining relabelled graphs. |
| Seurat_workflow | Create a Seurat object from score matrix, then,... |
| site_score | Calculate the match score between two sites. |
| theme_scatter | Theme of Scatter plot genepro custom theme |
