masurca VS drep

Compare masurca vs drep and see what are their differences.

masurca

By alekseyzimin
masurca Genome Assembly Bioinformatics
Source Code
Suggest alternative
Edit details

drep

Rapid comparison and dereplication of genomes (by MrOlm)
Bioinformatics metagenomics microbiology Assembly microbial-genomes
Source Code
Suggest alternative
Edit details
InfluxDB - Power Real-Time Data Analytics at Scale
Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.
www.influxdata.com
featured
SaaSHub - Software Alternatives and Reviews
SaaSHub helps you find the best software and product alternatives
www.saashub.com
featured
masurca drep
1 1
229 237
- -
3.5 3.9
2 months ago about 2 months ago
M4 Python
GNU General Public License v3.0 only -
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.

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.

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.

What are some alternatives?

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

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

DAS_Tool - DAS Tool

bioinformatics - Bioinformatic algorithms for the UCLA Bioinformatics Specialization

SqueezeMeta - A complete pipeline for metagenomic analysis

mag - Assembly and binning of metagenomes

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

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

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

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

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

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

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