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: 10.1186/s40168-019-0658-x

https://doi.org/10.1186/s40168-019-0658-x

Cited by: 124
Author(s): Erik L. Clarke, Louis J. Taylor, Chunyu Zhao, Andrew Jesse Connell, Jung‐Jin Lee, Bryton Fett, Frederic D. Bushman, Kyle Bittinger
Published: about 5 years ago

Software Mentions 11

cran: UpSetR
A More Scalable Alternative to Venn and Euler Diagrams for Visualizing Intersecting Sets
Papers that mentioned: 319
cran: vegan
Community Ecology Package
Papers that mentioned: 6,903
pypi: bwa
Bwa: Simple Notification Sender(Discord, Slack, Gmail and Telegram)
Papers that mentioned: 989
pypi: bzip2
Papers that mentioned: 58
pypi: conda
OS-agnostic, system-level binary package manager.
Papers that mentioned: 92
pypi: cutadapt
Adapter trimming and other preprocessing of high-throughput sequencing reads
Papers that mentioned: 1,562
pypi: grabseqs
Easily download reads from next-gen sequencing repositories like NCBI SRA
Papers that mentioned: 2
pypi: install
Install packages from within code
Papers that mentioned: 1
pypi: MetaPhlAn
MetaPhlAn is a computational tool for profiling the composition of microbial communities (Bacteria, Archaea and Eukaryotes) from metagenomic shotgun sequencing data (i.e. not 16S) with species-level. With the newly added StrainPhlAn module, it is now possible to perform accurate strain-level microbial profiling.
Papers that mentioned: 306
pypi: tadpole
flask starter, support gunicorn start,stop,reload script and restful view , auto restful sqlalchemy model, auth and permission
Papers that mentioned: 5
pypi: wget
pure python download utility
Papers that mentioned: 43