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irida-docker

irida-galaxy-deploy

:whale: Deploying IRIDA and Galaxy all in one server/VM using Docker or Terraform

irida_uploader_cl

Linux terminal version of irida_uploader

lexmapr_django

Django-powered interface for the LexMapr package.

linuxexam_friday13thmay

lyve-set

LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations

mag

Assembly and binning of metagenomes

micall-lite

Pipeline for processing FASTQ data from an Illumina MiSeq for human RNA virus (HIV, hepatitis C virus) genotyping

misc_scripts_dj

monday16thmay

mulled

Mulled - Automatized Containerized Software Repository

multi-package-containers

Testing building mulled containers for multi-requirement tools.

nanopore-scripts

Various scripts and utilities for manipulation of nanopore data

nanopore-transfer-automation

Performs archiving and transfer of Nanopore sequencing data

nextcloudsetup

ngs

ngs-pipeline

By study this, it won't be costly or time-consuming to customize a NGS data analysis pipeline

ngscourse

Introduction to Bioinformatics Using NGS Data

ngseasy

Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)

pokay

Report salient qPCR primer/probe or immune epitope mismatches info against a set of pathogen isolate genomes

probetools

Flexible, user-friendly hybridization probe design for diverse viral taxa

puppet-magic_castle

Puppet Environment repo for Magic Castle - https://github.com/ComputeCanada/magic_castle

qsub-scripts

rnaseq

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

sars-cov-2_multi-pcr_v1.0

SARS-CoV-2 analysis pipeline for multiplex-PCR MPS(Massive Parrallel Sequencing) data

sars-cov-2_sequencing

A collection of sequencing protocols and bioinformatic resources for SARS-CoV-2 sequencing.

sarscov2origins

A repo with supplementary material for a manuscript on the origin of SARS-CoV-2 origins

sars_cov_2

Bioinformatics analysis of SARS-CoV-2

sequdas

SeqUDAS: Sequence Upload and Data Archiving System

sequdas_client