quadram-institute-bioscience/otusfocus

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quadram-institute-bioscience/otusfocus

quadram-institute-bioscience

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clean OTU table

socru

Order and orientation of complete bacterial genomes

dadaist2

Dadaist2 🟨 Highway to R

albatradis

Comparative TraDIS analysis

phage-annotation-workshop

Phage Annotation Workshop 2021

parallel-virfinder

Run virfinder in parallel

tatajuba

Identification and classification of homopolymeric tracts from reads.

scagaire

uvaia

Reference-based alignment and sequence database search of SARS-CoV-2 genomes.

datasciencegroup

Scripts and docs from the datascienceatqib group

Jupyter Notebook

galaxy-tools

A collection of bioinformatics tools for use with galaxy written at Quadram Institute

gmh-sops

SOPs for Gut Microbes and Health

seqfu

Legacy repository (https://telatin.github.io/seqfu2)

start-asap

Initialize an ASA³P configuration file

faprotax-tools

Parser and annotation tools using the FAPROTAX database (Louca S. et al., 2016)

QuaTradis

A pipeline to analyse transposon directed insertion-site sequencing

ncov2019-artic-nf

phylo-methods

ronaldo

Comparison tool of SARSCOV2 seq and assays

coronahit_guppy

Configuration for demultiplexing coronaHiT data with Guppy

irida-plugin-qi-taxon

knockout-validation

irida-plugin-qi-phylo

streptococcus_kmers

K-mer spectrum analysis for Streptococcus genus to differentiate Strep pneumonia and other Streptococcus spp

phylosequel

Where Data Becomes Phyloseq Magic!

interleafq

📦 Interleave and deinterleave FASTQ files. Streams and gzipped FASTQ files are accepted.

template_qib_report

Template of a (PDF/HTML) report document using pandoc

irida-plugin-qi-typing

NBI-Slurm

Experimental interface to slurm

virometools

Scripts for virome analysis

LoRTIS

Workflow that takes as input a reference genome and long reads from sequencing then produces an insertion plot.