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25 search results found

Taxonkit ⭐ 306

A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV

Bioinformatics One Liners ⭐ 277

Bioinformatics one liners from Ming Tang

Training Modules ⭐ 260

Materials for short, half-day workshops

Ppanggolin ⭐ 191

Build a partitioned pangenome graph from microbial genomes

Genome_updater ⭐ 123

Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy

A handy variant calling pipeline generator for whole-genome sequencing (WGS) and whole exom sequencing data (WES) analysis. 一个简易且全面的 WGS/WES 分析流程生成器.

A fast 23andMe DNA parser and inferrer for Python

📇 Retrieve data in genomic intervals with a Python interface for tabix.

DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies a series of filters and integrates data across replicate sets to arrive at a precise list of circRNA candidates.

Smartpeak ⭐ 30

Fast and Accurate CE-, GC- and LC-MS(/MS) Data Processing

Ribocode ⭐ 28

release version

Orthoevolution ⭐ 28

An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵

Helpful_commands ⭐ 26

Command-line tools, commands, and code snippets for performing routine data processing and bioinformatics tasks.

Atacseq_pipeline ⭐ 25

Ultimate ATAC-seq Data Processing & Quantification Workflow. A Snakemake implementation of the BSF's ATAC-seq Data Processing Pipeline extended by downstream quantification and annotation steps using bash and Python.

Rnaseq Pipeline ⭐ 18

RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.

A small python program to simulate a real-time Nanopore sequencing run based on a previous experiment.

Informme ⭐ 15

An information-theoretic pipeline for methylation analysis of WGBS data

Intro2linux ⭐ 13

Taller de introducción al biocómputo en sistemas UNIX y GNU/Linux

Vscode H2o ⭐ 12

Add CLI autocomplete functionalities to Shell Script

H2o Curated Data ⭐ 11

Semi-hand curated command-line option data for many CLI programs, geared toward bioinformatics tools. Shell completion scripts are also available.

Riboraptor ⭐ 9

Tool for ribo-seq analysis

A fast, easy way to present complex bioinformatics pipelines to biologists

Openbio.eu ⭐ 7

An Open Collaborative Scientific Environment

molyso - Mother Machine Analysis Software

Mykrobe_tb_workflow ⭐ 5

A workflow for analysis and resistance profiling of Mycobacterium tuberculosis nanopore data with Mykrobe

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