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cansnper1.1

CanSNPer1.1: A toolkit for SNP-typing using NGS data. Copyright (C) 2016 Adrian Lärkeryd Updates done by David Sundell VERSION 1.1.0 (Adjusted to python 3, python 2 support is depricated) This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program. If not, see <http://www.gnu.org/licenses/>.

cansnper2

CanSNPer2: A toolkit for SNP-typing bacterial genomes.

cansnper2-data

Repository for the CanSNP database contaning the source tree from CanSNPer version 2 and later

flextaxd

FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )

metaquest

MetaQuest is a robust and user-friendly command-line toolkit designed to simplify and streamline the analysis of metagenomic data. From summarizing the presence of specific genomes to visualizing complex datasets, MetaQuest offers an array of tools to help researchers uncover insights from their metagenomic datasets.

microbialforensics

A likelihood ratio-based approach for improved source attribution in microbial forensics

mst

nanoclust

NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads

nanometa_live

A streamlined workflow and GUI for real-time species identification and pathogen characterization via nanopore sequencing data. Engineered for precision, speed, and user-friendliness, with offline functionality post-initialization.

predators-and-nutrient-availability-favor-protozoa-resisting-bacteria-in-aquatic-systems

repgenr

RepGenR (Representative-Genome Repositories) clusters genome sequences based on average nucleotide identity to produce flexible databases

starps

A simulation tool for cultivation of bacterial populations

useful-scripts

A collection of useful scripts