如果不想安装额外的库,也可以使用Python的基本文件操作函数来读取Fasta文件。 使用以下代码示例读取Fasta文件: fasta_file="sequences.fasta"withopen(fasta_file,"r")asfile:sequences=file.readlines()sequences=[line.strip()forlineinsequencesifline.strip()]# 删除空行foriinrange(0,len(sequences),2):sequ...
defmodify(self, binFile, seqFile, seqsToAdd, seqsToRemove, outputFile):"""Add and remove sequences from a file."""binSeqs =readFasta(binFile)# add sequences to binifseqsToAdd !=None: refSeqs =readFasta(seqFile) self.__addSeqs(binSeqs, refSeqs, seqsToAdd)# remove sequences from ...
python.bioio 本文搜集整理了关于python中bioio readFASTA方法/函数的使用示例。 Namespace/Package: bioio Method/Function: readFASTA 导入包: bioio 每个示例代码都附有代码来源和完整的源代码,希望对您的程序开发有帮助。 示例1 def test_writeFASTA(self): read_fasta_data = bioio.readFASTA(['sample1....
sys.path.append(os.path.join(sys.path[0],'lib'))sys.path.append(os.path.join(sys.path[0],'test'))importbioioimportbiomathimporttime# read input files and namesdb_dict=bioio.readFASTAdict([sys.argv[-1]])input_db_name=sys.argv[-1][:-6]file_dict=bioio.readFASTAdict([sys.argv[...
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在Python中,read()和read1()是文件对象的两个方法,用于读取文件内容。 1. read()方法: - 概念:read()方法用于读取整个文件的内容,并将其作为一个字符串返回。 ...
prefix = leaf.nameifprefix.lower() =="ancestor":continuelist_of_filenames_strains.append("{prefix}.fasta".format(prefix=prefix))returnlist_of_filenames_strains 开发者ID:CAMI-challenge,项目名称:CAMISIM,代码行数:23,代码来源:strainsimulationwrapper.py ...
python junction annotation.py−r hg19 Ensembl.bed−i accepted hits.bam−o file 可以使用junction saturation.py来检查剪切位点的测序丰度。从reads 中随机取样,检测每一个子集,与参考基因组注释比较,结果是分别指出新的剪切点和已知的剪切点。 python junction saturation.py−r hg19 Ensembl.bed−i accep...
Virus Names-v, --virusesA tab delimited file giving the viral contig name and the length of the contig. If you usesamtools faidxon a separate fasta of your virus contigs you can pass the.faifile to this argument Viral Contigs-g, --viral_contigsA separate fasta file of your viral contigs...
It enables to load a fasta file of a colletion of protein sequences and search for proteins by its accesion number, name or subsequence. ... Attributes --- searchButtonP : QtWidgets.QPushButton a button to be shown on window and exc action on click searchButto...