programming-for-bioinformatics
所属分类：生物医药技术
开发工具：Shell
文件大小：0KB
下载次数：0
上传日期：2023-08-27 09:19:51
上 传 者：
sh-1993
说明： 在这里，我想向所有对生物信息学感兴趣的人介绍使用bash、python和bash脚本的编程，
(Here I want to introduce the programming with bash, python and bash script for everyone who are interested in bioinformtics,)
文件列表:
00.introduction_to_bioinformatics/ (0, 2023-08-27)
00.introduction_to_bioinformatics/lecture.md (100, 2023-08-27)
01.introduction_to_bash_script/ (0, 2023-08-27)
01.introduction_to_bash_script/lecture/ (0, 2023-08-27)
01.introduction_to_bash_script/lecture/1.Intro_command_line.md (12199, 2023-08-27)
01.introduction_to_bash_script/lecture/2.Programming_with_bash_script.md (3919, 2023-08-27)
01.introduction_to_bash_script/lecture/3.Write_bash_script_modules.md (2184, 2023-08-27)
01.introduction_to_bash_script/lecture/4.Manage_software_basic_conda.md (2440, 2023-08-27)
01.introduction_to_bash_script/lecture/5.Authentication.md (4409, 2023-08-27)
01.introduction_to_bash_script/lecture/6.Login_and_remote_file.md (4351, 2023-08-27)
01.introduction_to_bash_script/practice.md (12972, 2023-08-27)
01.introduction_to_bash_script/practice/ (0, 2023-08-27)
01.introduction_to_bash_script/practice/01.search_pattern/ (0, 2023-08-27)
01.introduction_to_bash_script/practice/01.search_pattern/accessions.txt (147, 2023-08-27)
01.introduction_to_bash_script/practice/01.search_pattern/script.sh (838, 2023-08-27)
01.introduction_to_bash_script/practice/02.quality_control/ (0, 2023-08-27)
01.introduction_to_bash_script/practice/02.quality_control/script.sh (442, 2023-08-27)
01.introduction_to_bash_script/practice/03.SRA_query_and_qc_fastq/ (0, 2023-08-27)
01.introduction_to_bash_script/practice/03.SRA_query_and_qc_fastq/script.sh (2403, 2023-08-27)
01.introduction_to_bash_script/practice/04.cutadapt_and_trimmomatic/ (0, 2023-08-27)
01.introduction_to_bash_script/practice/04.cutadapt_and_trimmomatic/script.sh (371, 2023-08-27)
01.introduction_to_bash_script/practice/05.salmon_quant_and_star_alignment/ (0, 2023-08-27)
01.introduction_to_bash_script/practice/05.salmon_quant_and_star_alignment/script.sh (889, 2023-08-27)
01.introduction_to_bash_script/practice/06.Spades_whole_genome/ (0, 2023-08-27)
01.introduction_to_bash_script/practice/06.Spades_whole_genome/script.sh (379, 2023-08-27)
01.introduction_to_bash_script/practice/07.Genome_evaluation/ (0, 2023-08-27)
01.introduction_to_bash_script/practice/07.Genome_evaluation/script.sh (208, 2023-08-27)
01.introduction_to_bash_script/practice/practice.md (7136, 2023-08-27)
02.introduction_to_python/ (0, 2023-08-27)
02.introduction_to_python/lecture/ (0, 2023-08-27)
02.introduction_to_python/lecture/lecture_p1_programming_with_python.md (7875, 2023-08-27)
02.introduction_to_python/practice/ (0, 2023-08-27)
02.introduction_to_python/practice/visualization/ (0, 2023-08-27)
02.introduction_to_python/practice/visualization/violint_plot.py (463, 2023-08-27)
... ...
# Introduction-to-programming
Here I want to introduce the programming with bash, python and bash scrirpt for everyone who interested in bioinformtics
## [01. Introduction to bashscript](https://github.com/giangbioinformatics/Introduction-to-programming/blob/main/01.Introduction_to_bash_script.md)
In this section, I provided the basic built-in functions that could be used for working on bash scripts.
## [02. Programming with bashscript](https://github.com/giangbioinformatics/Introduction-to-programming/blob/main/02.Programming_with_bash_script.md)
I provided the basic programming,include: syntax, comment, variable, datatype, condition, loop and function. Combined with previous section to create more advanced bash scripts.
## [03. Programming with awk]()
Most of bioinfomatics data are storaged on text-formarted. Awk is a programming that frequently uses to manipulate the data.
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