python3 -m jcvi.compara.synteny screen --minsize=0--minspan=30--simple At.youcai.anchors At.youcai.anchors.new python3 -m jcvi.compara.synteny screen --minsize=0--minspan=30--simple youcai.youcai.anchors youcai.youcai.anchors.new python3 -m jcvi.compara.synteny screen --minsize=0--...
$ python -m jcvi.graphics.karyotype seqids layout 结果图看这里 个性化设置显示颜色,最近做的一个基因组的共线性分析: 好了,到这里我们就结束了,想了解MCscan python版本的更多内容,可以查看MCscan 官网:https://github.com/tanghaibao/jcvi/wiki/MCscan-(Python-version) 6. 共线性结果说明 1.基因组共线性详细...
# gff文件的格式 这是我处理gff3文件的python代码,大家可以参考: importosimportpandasaspddefmain(path):gff3_files=[]files=os.listdir(path)forfileinfiles:iffile.split('.')[-1]=='gff3':gff3_files.append(file)x=pathforgff3_fileingff3_files:withopen(x+gff3_file,"r")asfile:temp=pd.read...
To call synteny blocks, we performed all-against-all LAST [2] and chained the LAST hits with a distance cutoff of 20 genes, also requiring at least 4 gene pairs per synteny block. Chromosome-scale synteny blocks plots were constructed using the python version of MCScan[3]. [1] Tang H, ...