gffutils包 gffutils是一个用于解析gff3/gtf格式的python包,读取gff3文件非常方便,利用这个包实现对基因结构注释文件重新命名python脚本如下 #!/usr/bin/env python# -*- coding: utf-8 -*-importreimportsysimportargparseimportloggingimportgffutilsfromcollectionsimportdefaultdictdefrename(args):seqid2name=dict()fo...
gffutilsis a Python package for working with and manipulating the GFF and GTF format files typically used for genomic annotations. Files are loaded into a sqlite3 database, allowing much more complex manipulation of hierarchical features (e.g., genes, transcripts, and exons) than is possible wit...
*** ** Running miniprot ** *** gffutils database build failed with UNIQUE constraint failed: features.id while there are so many warnings and a ValueError: $tail -50 CN1v1.0/Mat/06.lifton/GRCh38/lifton.sh.sbatch.e 2024-07-01 15:57:42,479 - WARNING - Duplicate lines in file for...
GFFUtils-0.10.3.It is recommended to install the code into a Python virtual environment, which you can create by doing:virtualenv venv source venv/bin/activate pip install -r ./GFFUtils-0.10.3/requirements.txt pip install ./GFFUtils-0.10.3/ ...
"""gffutils.create_db(fn,':memory:', _keep_tempfiles='.%s'% i)returni 开发者ID:DHatziioanou,项目名称:gffutils,代码行数:7,代码来源:test.py 示例4: test_create_db_from_url ▲点赞 1▼ deftest_create_db_from_url():""" Test creation of FeatureDB from URL iterator. ...
gffutils是一个Python软件包,用于处理和处理通常用于基因组注释的GFF和GTF格式文件。 文件被加载到sqlite3数据库中,与仅使用纯文本方法相比,可以对层次结构特征(例如,基因,转录本和外显子)进行更为复杂的操作。 请参阅文档。点赞(0) 踩踩(0) 反馈 所需:15 积分 电信网络下载 ...
gffutils.zip刺心**se 上传1.55 MB 文件格式 zip GFF and GTF file manipulation and interconversion 点赞(0) 踩踩(0) 反馈 所需:1 积分 电信网络下载 vue-pull-to 2024-10-14 15:43:45 积分:1 Book6_First-Course-in-Data-Science 2024-10-14 15:43:23 积分:1 No209Property-Management-System ...
# 需要导入模块: import gffutils [as 别名]# 或者: from gffutils importcreate_db[as 别名]def__init__(self, gtf_file, fasta_file, disable_infer_transcripts=True, disable_infer_genes=True):self.gtf_file = gtf_file self.fasta_file = fasta_file ...
daler/gffutilsPublic NotificationsYou must be signed in to change notification settings Fork78 Star287 New issue smoewants to merge1commit intodaler:masterfromsmoe:patch-1 smoecommentedJan 26, 2021 DeprecationWarning: invalid escape sequence \w ...
gffutilsis a Python package for working with and manipulating the GFF and GTF format files typically used for genomic annotations. Files are loaded into a sqlite3 database, allowing much more complex manipulation of hierarchical features (e.g., genes, transcripts, and exons) than is possible wit...