drep VS masurca

Compare drep vs masurca and see what are their differences.

drep

Rapid comparison and dereplication of genomes (by MrOlm)
Bioinformatics metagenomics microbiology Assembly microbial-genomes
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masurca

By alekseyzimin
masurca Genome Assembly Bioinformatics
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drep masurca
1 1
237 229
- -
3.9 3.5
about 2 months ago 2 months ago
Python M4
- GNU General Public License v3.0 only
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drep

Posts with mentions or reviews of drep. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2021-07-25.
  • How to dereplicate MAGs? (metagenome assembly genomes)
    2 projects | /r/bioinformatics | 25 Jul 2021
    You should look at https://github.com/MrOlm/drep . Thats exactly the tool you need. Usually one takes all their bins and dereplicates them at 99% ANI for strain level dereplication or 95% at species level. For preserving the best quality, you would need to check yourself if the best genome survived the dereplication afaik. You probably want some sort of quality score and chose the one with the highest score out of the bins that got grouped as one by dereplication.

masurca

Posts with mentions or reviews of masurca. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2022-05-10.

What are some alternatives?

When comparing drep and masurca you can also consider the following projects:

DAS_Tool - DAS Tool

deepvariant - DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

SqueezeMeta - A complete pipeline for metagenomic analysis

bioinformatics - Bioinformatic algorithms for the UCLA Bioinformatics Specialization

covid-19-signal - Files and methodology pertaining to the sequencing and analysis of SARS-CoV-2, causative agent of COVID-19.

mag - Assembly and binning of metagenomes

kraken-biom - Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).

Trycycler - A tool for generating consensus long-read assemblies for bacterial genomes

phantasm - PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes

aviary - A hybrid assembly and MAG recovery pipeline (and more!)

pyrodigal - Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!

eager - A fully reproducible and state-of-the-art ancient DNA analysis pipeline

drep vs DAS_Tool masurca vs deepvariant drep vs SqueezeMeta masurca vs bioinformatics drep vs covid-19-signal masurca vs mag drep vs kraken-biom masurca vs Trycycler drep vs phantasm masurca vs aviary masurca vs pyrodigal masurca vs eager