jacarrico Goto Github PK

abstat17

chewbbaca_tutorial

Step by step tutorial using chewBBACA with all necessary files and results

coelho2015_netsdetermination

Reproducible code archive for "Automatic Determination of NET (Neutrophil Extracellular Traps) Coverage in Fluorescent Microscopy Images" by Coelho et al.

comparingpartitions

Colection of python functions for Partition Comparison - See www.comparingpartitions.info for more information

dwnftp

Scripts to download data from ftp://ftp.ncbi.nlm.nih.gov/genomes/Bacteria/

escmid-mge-2022

goeburst

goeBURST in python

grapetree

GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata.

ist_hpc_test

a nextflow pipeline build with flowcraft for genome assembly and QA/QC

jacarrico.github.io

My webpage

mlsttrimm

Python Scripts for inferring Allele trimming patterns for MLST alleles

moran

D3 Moran Model Simulator

moransim

oneida_genomics_workshop

phyloviz.github.io

phylovizutils

plasmidcoverage

Initial tests in finding plasmid coverages from reads and inferring plasmid contents

qiime2-session

Material for Trainning session with QIIME2 for Microbial diversity analysis using 16S rRNA gene

sample_fastq

Functions to sample fastq.gz files down to x coverage

sccion

SCCmec typing for MRSA

schlaf.github.io

web container for whac data and Whac-online

tweepy

A Python library for accessing the Twitter API

ummi-bioinformatics

Bioinformatics repository for the work developed at Molecular Microbiology and Infection Unit (http://im.fm.ul.pt) at Instituto de Medicina Molecular (http://imm.fm.ul.pt), Faculty of Medicine, University of Lisbon, Portugal