Gian77

Bash-For-Bioinformatics

Usefull bash script and tricks to play with sequences

Amplicon-Pipelines-hpcc

ITS and 16S bioinformatic pipiliens to run on HPCC at Michigan State University

Cecilia

usearCh basEd ampliCon pIpeLine for Illumina dAta

data-hygiene

Demultiplex-USEARCH

Short pipeline to quickly demultiplex illumina amplicon data

Rcode-for-Microbiome

Scripts for analyzing microbiome data

Scientific-Papers-R-Code

Amplicon-PacBio

PacBio ITS amplicon data

BacFlux

A workflow for bacterial short reads assembly, QC, annotation, and more.

bioconda-recipes

Conda recipes for the bioconda channel.

BLAST-work-tools

CONSTAXv2

GAAP-BI

Genome Assembly and Annotation Pipeline for Bacteria Illumina

DADAprep

Prepare your illumina reads before DADA2 pipeline

GAAP-BP

Genome Assembly and Annotation Pipeline for Bacteria Pacbio

Genome-work

Git-resources

How-to-ggplot2

Intro-to-rnaseq-hpc-O2

This repository has teaching materials for a 2 and 3-day Introduction to RNA-sequencing data analysis workshop using the O2 Cluster

metaGAAP

metaGenome Assembly and Annotation Pipeline

Metagenome-work

Misfunk

Miscellaneous R functions

Nextflow-tutorial

Playing-With-Python

Python code for Bioinformatics

R-programming

SRA-database

Working with the Sequence Read Archive

Students_Modules_PLP847

Student repo bioinfo code, homework and assignments

TagAnalysis

Repo for 16S and ITS workflows