eparisis

containers

Bioinformatics containers

nanopack

An overview of all nanopack tools

CheckM2

Assessing the quality of metagenome-derived genome bins using machine learning

ncbitax2lin

🐞 Convert NCBI taxonomy dump into lineages

helpful_commands

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

cheat-sheets

This is my personal knowledge-base. Here you'll find code-snippets, technical documentation, and command reference for various tools, and technologies.

NanoSim

Nanopore sequence read simulator

pb-metagenomics-tools

Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics

wf-metagenomics

Metagenomic classification of long-read sequencing data

pipeline-nanopore-denovo-isoforms

Pipeline for de novo clustering of long transcriptomic reads

puntseq-workflows

PuntSeq - Chasing the microbial diversity of Cambridge's freshwater (workflows)

Laspinema

GTDBTk

GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.

emp

Code repository of the Earth Microbiome Project.

pgap

NCBI Prokaryotic Genome Annotation Pipeline

Linux-21-Workshop-Material

OSC19-Linux-Workshop-Sessions

All of the workshop sessions of OSC'19 in .md and .pdf formats.

helpful_links

Links to resources related to bioinformatics and data analysis.

Bio-Courses

Tutorials for bacterial WGS

centrifuge

Classifier for metagenomic sequences

Porechop

adapter trimmer for Oxford Nanopore reads

shiny

Easy interactive web applications with R

prokka

:zap: :aquarius: Rapid prokaryotic genome annotation

biobakery

bioBakery tools for meta'omic profiling

DAS_Tool

DAS Tool

Flye

De novo assembler for single molecule sequencing reads using repeat graphs

Awesome-Hacking

A collection of various awesome lists for hackers, pentesters and security researchers