Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Papers: 10.1371/journal.pcbi.1008716

https://doi.org/10.1371/journal.pcbi.1008716

Metagenomics workflow for hybrid assembly, differential coverage binning, metatranscriptomics and pathway analysis (MUFFIN)

Cited by: 14
Author(s): Renaud Van Damme, Martin Hölzer, Adrian Viehweger, Bettina Müller, Erik Bongcam‐Rudloff, Christian Brandt
Published: almost 4 years ago

Software Mentions 8

pypi: centrifuge

Simple real-time messaging in web applications
Papers that mentioned: 4

pypi: conda

OS-agnostic, system-level binary package manager.
Papers that mentioned: 92

pypi: eggnog-mapper

Fast functional annotation of novel sequences using eggNOG orthology assignments.
Papers that mentioned: 41

pypi: medaka

Neural network sequence error correction.
Papers that mentioned: 15

pypi: muffin

Muffin is a fast, simple and asyncronous web-framework for Python 3 (asyncio, trio, curio)
Papers that mentioned: 1

pypi: nextflow

A Python wrapper that installs the Nextflow launcher
Papers that mentioned: 9

pypi: PACE

Data Quality of Experimental Data
Papers that mentioned: 13,779

pypi: sourmash

tools for comparing biological sequences with k-mer sketches
Papers that mentioned: 10