cd-hit 是一款用于将蛋白、核酸序列快速聚类的工具。由于宏基因组样品中可能包含相似物种,拼接结果中可能会存在一部分冗余序列,导致预测出来的基因包含冗余部分,可以通过聚类进行去冗余。 通常去冗余采用的聚类算法根据序列相似度对序列进行聚类,需要进行 all by all 的比较,例如 orthoMCL,不过这种方法非常耗时。而 cd-...
cd_hit_py Python interface to cd-hit clustering program. See example for basic commands. The cd-hit executable files are taken from anaconda. Therefore, this project will work for linux and OSX distributions only. Run following command to get this project git clone https://github.com/sdivye9...
uclust --input seqs_sorted.fasta --ucresults. uc --id 0.5 Like in CD-HIT, clusters can be stored in a .clstr file after reformatting the result. uc file: uclust --uc2clstr results.uc --output clusters. clstr. 2.1.3 KCLUST 这是一种在几天内将大型蛋白质序列数据库(例如UniProt)聚类...
$ python ~/PATH_TO_DIR/CDHITtoFASTA -h usage: CDHITtoFASTA [-h] [-i CLUSTER] [-s FASTA] [-r LIST] Extracts CD-Hit clusters which contain reference proteins and stores them in FASTA format. optional arguments: -h, --help show this help message and exit -i CLUSTER, --cluster_file...
使用cd-hit对蛋白质或核酸序列进行聚类 转载自:https://huifangliu.github.io/2018/08/22/%E4%BD%BF%E7%94%A8cd-hit%E5%AF%B9%E8%9B%8B%E7%99%BD%E8%B4%A8%E6%88%96%E6%A0%B8%E9%85%B8%E5%BA%8F%E5%88%97%E8%BF%9B%E8%A1%8C%E8%81%9A%E7%B1%BB/...
Say I have this: See my understanding of async/await is that the UI becomes responsive as soon as an await is hit. So in theory, ...Printing object attributes based on user input in Python 3x First of all I'd like to say im a Python beginner (or programming beginner for that ...
二、cd-hit去冗余 官网:http://weizhongli-lab.org/cd-hit/ conda 地址:https://anaconda.org/bioconda/cd-hit 参数 M:内存,单位M,默认800 T:线程,默认1 c: identity 0.9 by default # 安装 conda install -c bioconda cd-hit cd-hit --help ...
Apologies if this sounds like a stupid question, but I'm just curious. Say I have this: See my understanding of async/await is that the UI becomes responsive as soon as an await is hit. So in theory, ... Printing object attributes based on user input in Python 3x ...
.add_yaxis("命中数", hit, stack="stack1", category_gap="50%") # 生成文件 .set_global_opts( title_opts={"text": "投篮数与民众数对比"} ) .render("球员投篮数与命中数对比.html") ) # 生成前50条 bar2 = ( Bar(init_opts=opts.InitOpts(theme=ThemeType.LIGHT, width="1600px", heig...
针对ros系统记录的bag文件,可以使用python的rosbag包,按照不同起止时间和topic进行提取。 然而,有的topic可以使用rosbag读取,但是不能遍历,存在解码错误。原因应该是存在中文字符的注释, 这个可以在函数生成的temp.py中看到。 python提取bag文件时发生解码错误: ...