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andi

♥ Efficient Estimation of Evolutionary Distances

aplot

Decorate a plot with associated information

arsm-evolutionary-placements

This script describes the processing of Illumina MiSeq reads from arsM amplicons sequencing. The results were published here: Matthew C. Reid, Julien Maillard, Alexandre Bagnoud, Leia Falquet, Phu Le Vo, and Rizlan Bernier-Latmani (2017). Arsenic Methylation Dynamics in a Rice Paddy Soil Anaerobic Enrichment Culture. Environmental Science & Technology. DOI: 10.1021/acs.est.7b02970

awesome-bioinformatics

A curated list of awesome Bioinformatics libraries and software.

awesome-genome-visualization

A list of interesting genome browser or genome-browser-like implementations

bioinformatics

:microscope: Path to a free self-taught education in Bioinformatics!

bioinformatics-tools-1

Awesome resources on Bioinformatics, data science, machine learning, programming language (Python, Golang, R, Perl) and miscellaneous stuff.

bioinformatics_online

Resource list and preparation instructions for online learning and teaching for Bioinformatics

biotite

A comprehensive library for computational molecular biology

canu

A single molecule sequence assembler for genomes large and small.

cdhit

Automatically exported from code.google.com/p/cdhit

circos

Circos is a software package for visualizing data and information. It visualizes data in a circular layout — this makes Circos ideal for exploring relationships between objects or positions.

cs-video-courses

List of Computer Science courses with video lectures.

dge_workshop_salmon_online

diamond

Accelerated BLAST compatible local sequence aligner.

digs-tool

Database-Integrated Genome Screening (DIGS) tool. Explore genomes interactively using BLAST and a relational database.

ebl_2020

evcouplings

Evolutionary couplings from protein and RNA sequence alignments

factoextra

Extract and Visualize the Results of Multivariate Data Analyses

flexidot

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

gdgraph

GD::Graph modules for Perl

gggenes

➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2

gggenomes

A grammar of graphics for comparative genomics

intro-to-r

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

isonclust2

A tool for de novo clustering of long transcriptomic reads

macsyfinder

MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.

metamaps

Long-read metagenomic analysis

microbiomeutilities

The is mostly a wrapper tool using phyloseq and microbiome R packages.

microbiotaprocess