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20251217

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agent
2025-12-17 20:22:04 +08:00
parent 0d31d42de4
commit d8888b8589
3 changed files with 37 additions and 4 deletions
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slides/20251213/pages/技术路线.md
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@@ -45,7 +45,7 @@ end
subgraph subgraph2[Step2. 同源基因集聚类]
direction LR
ass[转录本]:::warn --> CDS[预测CDS，抽取最长转录本的最长ORF作为输入CDS，TransDecoder]:::done
ass[转录本]:::warn --> CDS[预测CDS，抽取最长转录本的最长ORF作为输入CDS，TD2]:::done
CDS --> reducedCDS[单样本CDS序列去冗余，CD-HIT]:::done
reducedCDS --> ortho[基因家族聚类得到低拷贝同源基因集，OrthoFinder]:::done
ortho --> homolog[将枣的同源基因整合到低拷贝同源基因集中, hmmer]:::done
@@ -53,7 +53,7 @@ end
subgraph subgraph3[Step3. 基因集筛选与基因树]
direction LR
homo[低拷贝同源基因集]:::warn --> alignment[基于蛋白序列比对，mafft/pal2nal<br>修剪比对序列，trimAl]:::done
homo[低拷贝同源基因集]:::warn --> alignment[基于蛋白序列比对，macse<br>修剪比对序列，trimAl]:::done
alignment --> treeshrink[fasttree快速构树，基于长枝吸引（treeshrink）和比对序列长度过滤基因集]:::done
treeshrink --> modeltest[序列进化模型检验，modeltest-ng]:::done
modeltest --> raxml[构建ML单基因树]:::done