phylogeny_protocol4
This is an old revision of the document!
<Last updated by Xi Zhang on Sep 3rd,2021>
color_newick_tree.py script and example can be found via the link https://github.com/zx0223winner/TreeTuner/
With the furtherly trimmed trees available, there is a need to color the phylogenetic tree based on user desired taxa or group. For example, the following
>Rhodomonas_salina_CCMP1319@CP_0172105160_Eukaryota_Cryptophyceae_Pyrenomonadales_Pyrenomonadaceae_Rhodomonas_Rhodomonas_salina_52970_Rhodomonas_salina_CCMP1319 AVDPELMVGQPAVARALRPFMFGPTGVGKTQLATLCELEDMSEYESISLGAYLSEAVRRRPYSVVLFDEIEKAHPEVFNLLQVLDGIDGQGRVSFKNTIIIFTSNIGVFRPEFLRLIIFLNSLIVLRKLEAGVRVIM
color_map = {'Asgard group': '#00FF00',
'Candidatus Hydrothermarchaeota': '#32CD32',
'Candidatus Thermoplasmatota': '#006400',
'DPANN group': '#008000',
'Euryarchaeota': '#90EE90',
'TACK group': '#00FF7F',
'Archaea incertae sedis': '#ADFF2F',
'unclassified Archaea': '#2E8B57',
'Acidobacteria': '#00FFFF',
'Aquificae': '#00CED1',
'Atribacterota': '#40E0D0',
'Caldiserica/Cryosericota group': '#5F9EA0',
'Calditrichaeota': '#4682B4',
'Candidatus Krumholzibacteriota': '#6495ED',
'Chrysiogenetes': '#00BFFF',
'Coleospermum': '#1E90FF',
'Coprothermobacterota': '#191970',
'Deferribacteres': '#000080',
'Dictyoglomi': '#0000CD',
'Elusimicrobia': '#0000FF',
'FCB group': '#4169E1',
'Fusobacteria': '#8A2BE2',
'Myxococcota': '#4B0082',
'Nitrospinae/Tectomicrobia group': '#483D8B',
'Nitrospirae': '#6A5ACD',
'Proteobacteria': '#7B68EE',
'PVC group': '#9370DB',
'Spirochaetes': '#8B008B',
'Synergistetes': '#9400D3',
'Terrabacteria group': '#ADD8E6',
'Thermodesulfobacteria': '#B0E0E6',
'Thermotogae': '#BA55D3',
'Bacteria incertae sedis': '#800080',
'unclassified Bacteria': '#E0FFFF',
'Amoebozoa': '#800000',
'Ancyromonadida': '#8B0000',
'Apusozoa': '#A52A2A',
'Breviatea': '#B22222',
'CRuMs': '#DC143C',
'Cryptophyceae': '#FF0000',
'Discoba': '#FF6347',
'Glaucocystophyceae': '#FF7F50',
'Haptista': '#CD5C5C',
'Hemimastigophora': '#F08080',
'Malawimonadida': '#E9967A',
'Metamonada': '#FFA07A',
'Opisthokonta': '#B8860B',
'Rhodelphea': '#FF8C00',
'Rhodophyta': '#FFA500',
'Sar': '#FFD700',
'Viridiplantae': '#FF4500',
'Eukaryota incertae sedis': '#DAA520',
'unclassified eukaryotes': '#EEE8AA',
'environmental samples': '#BDB76B'}
phylogeny_protocol4.1651446952.txt.gz · Last modified: by 134.190.232.106