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oneliners

Useful bash one-liners for bioinformatics.

online.bioinformatics

pagoo

A comprehensive and intuitive encapsulated OO class system for analyzing bacterial pangenomes in R.

phylen

Compute a phylogeny using EggNOG database

phyloseq-extended

Various customs functions written to enhance the base functions of phyloseq. Most of them are used in the formation "Métagénomique 16S" provided by the platforms Migale and Genotoul

picard

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

proyecto-arima

Estimación de casos de COVID-19 en países de Suramérica empleando modelos ARIMA

puche_code

r-intermediate

An intermediate level course on the R statistical programming language

r-intro

Cambridge Basic R Course

rafapucheq

Datos, informacion, tutoriales sobre bioinformatica, biologia computacional, genomica y data science

rafapucheq.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

roary

Rapid large-scale prokaryote pan genome analysis

rpucheq.github.io

Datos, informacion, tutoriales sobre bioinformatica, biologia computacional, genomica y data science

rstats-ed

List of courses teaching R

sanger

sarscov2phylo

Global phylogenies of SARS-CoV-2 sequences

seqmule

Automated human exome/genome variants detection from FASTQ files

sickle

Windowed Adaptive Trimming for fastq files using quality

snippy

:scissors: :zap: Rapid bacterial SNP calling and core genome alignments

spacegrowth

Growth data and analysis for microbial playoffs in space, Project MERCCURI

spades

SPAdes Genome Assembler

stats-illustrations

.png images of #rstats, data science and statistics artwork from my twitter account (@allison_horst)

statsforstudents

List of online resources about statistics, aimed at undergraduates but useful to anyone :-)

taxxo

Integrating and automatising tools for prokaryotes taxonogenomics

treetime

Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction

tutorials

In this repo you will find demos and tutorials prepared by members of the CBIB. Feel free to use them for non-commercial activities given that you give proper credit. Have fun!

tutorials-1

:books: Various bioinformatics tutorials

tutorials-2

Tutorials on phylogenetic and phylogenomic inference

unicycler

hybrid assembly pipeline for bacterial genomes