kraken2
Here are 21 public repositories matching this topic...
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Jul 9, 2019 - Dockerfile
A post-processing tool to reclassify Kraken 2 output based on the confidence score and/or minimum minimizer hit groups.
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Nov 23, 2020 - Python
A simple nextflow pipeline for running kraken2 and bracken in a docker container
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Mar 4, 2021 - Nextflow
This script filters low abundant reads from Bracken outputs for downstream analyses
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Nov 30, 2021 - Shell
#Scripts to create Kraken2 database of PAFTOL V2.0 Angio353 genes. An excellent database for taxonomic identification of plants. #https://treeoflife.kew.org/ #https://github.com/DerrickWood/kraken2/wiki #Prior to using this script, download and install kraken2 and make sure it is working and in your PATH. #Make sure the location of the python sc…
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Mar 29, 2022 - Python
a simple python script for "grafting" on novel sequences to a custom Kraken2 database
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May 2, 2022 - Python
A LatchBio workflow for running Kraken2
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Dec 20, 2022 - Python
An intuitive tutorial on Kraken2 metagenomic analysis
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Mar 7, 2023 - Nextflow
Creates a simple OTU table from Kraken2 report.
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Apr 18, 2023 - Python
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Apr 24, 2023 - R
A bare-bones, ridiculously simple metagenomics pipeline for viruses using Kraken 2 written in Nextflow.
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Jan 15, 2024 - Nextflow
FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )
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Nov 21, 2023 - Python
Calculate confidence scores from Kraken2 output
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Feb 18, 2024 - C
An awesome BCL demultiplexing and FastQ quality-control pipeline
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Feb 28, 2024 - Python
A Shiny app for taxonomic abundance visualization
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May 6, 2024 - R
Repository for course project in Bioinformatics Institute 2023-2024
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May 20, 2024 - Jupyter Notebook
Genestrip - Efficient read classification, filtering and k-mer counting for selected groups of species
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Jul 1, 2024 - Java
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