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.

Projects: pypi: pick

https://packages.ecosyste.ms/registries/pypi.org/packages/pick

Pick an option in the terminal with a simple GUI
28 versions
Latest release: about 2 years ago
46 dependent packages
101,106 downloads last month

Papers Mentioning pick 20

Distinct Biogeographic Patterns for Archaea, Bacteria, and Fungi along the Vegetation Gradient at the Continental Scale in Eastern China
Cited by: 89
Author(s): Bin Ma, Zhongmin Dai, Haizhen Wang, Melissa Dsouza, Xingmei Liu, Yan He, Jianjun Wu, Jorge L. Mazza Rodrigues, Jack A. Gilbert, Philip C. Brookes, Jianming Xu
Software Mentions: 8
Published: almost 8 years ago

10.1002/ece3.4283

A comparative analysis of metabarcoding and morphology‐based identification of benthic communities across different regional seas
Cited by: 47
Author(s): Abigail Cahill, John K. Pearman, Ángel Borja, Laura Carugati, Susana Carvalho, Roberto Danovaro, Sarah Dashfield, Romain David, Jean‐Pierre Féral, Sergej Olenin, Andrius Šiaulys, Paul J. Somerfield, Antoaneta Trayanova, María C. Uyarra, Anne Chenuil
Software Mentions: 6
Published: over 6 years ago

10.1038/srep21969

Culex quinquefasciatus larval microbiomes vary with instar and exposure to common wastewater contaminants
Cited by: 27
Author(s): Marcus J. Pennington, Sean M. Prager, William E. Walton, John T. Trumble
Software Mentions: 6
Published: almost 9 years ago

10.3389/fmicb.2018.02381

How Rainforest Conversion to Agricultural Systems in Sumatra (Indonesia) Affects Active Soil Bacterial Communities
Cited by: 33
Author(s): Dirk Hölscher, Dominik Schneider, Martin Engelhaupt, Melanie Heinemann, Stephan Christel, Marini Wijayanti, Anja Meryandini, Rolf Daniel
Software Mentions: 5
Published: about 6 years ago

10.3389/fimmu.2019.03014

Bacterial Exposure Mediates Developmental Plasticity and Resistance to Lethal Vibrio lentus Infection in Purple Sea Urchin (Strongylocentrotus purpuratus) Larvae
Cited by: 12
Author(s): Nicholas W Schuh, Tyler J. Carrier, Catherine S. Schrankel, Adam M. Reitzel, Andreas Heyland, Jonathan P. Rast
Software Mentions: 5
Published: almost 5 years ago

10.1128/AEM.02992-18

Characterizing the Key Agents in a Disease-Suppressed Soil Managed by Reductive Soil Disinfestation
Cited by: 33
Author(s): Liang Liang Liu, Xinqi Huang, Jun Zhao, Jinbo Zhang, Zucong Cai
Software Mentions: 5
Published: over 5 years ago

10.3389/fmicb.2019.01519

Tree Species Shape Soil Bacterial Community Structure and Function in Temperate Deciduous Forests
Cited by: 57
Author(s): Amélie Dukunde, Dominik Schneider, M. Schmidt, Edzo Veldkamp, Rolf Daniel
Software Mentions: 5
Published: over 5 years ago

10.1038/srep26447

MetaTrans: an open-source pipeline for metatranscriptomics
Cited by: 84
Author(s): Xavier Martínez, Marta Pozuelo, Victoria Pascal, David Campos, Marta Gut, Fernando Azpiroz, Francisco Guarner, Chaysavanh Manichanh
Software Mentions: 5
Published: over 8 years ago

10.3389/fpls.2017.01550

Oomycete Communities Associated with Reed Die-Back Syndrome
Cited by: 13
Author(s): Martina Cerri, Rumakanta Sapkota, Andrea Coppi, Valentina Ferri, Bruno Foggi, Daniela Gigante, Lorenzo Lastrucci, Roberta Selvaggi, Roberto Venanzoni, Mogens Nicolaisen, Francesco Ferranti, Lara Reale
Software Mentions: 4
Published: over 7 years ago

10.3389/fmicb.2020.00867

Chemically Stressed Bacterial Communities in Anaerobic Digesters Exhibit Resilience and Ecological Flexibility
Cited by: 10
Author(s): Benjamin Schwan, Christian Abendroth, Adriel Latorre‐Pérez, Manuel Porcar, Cristina Vilanova, Christina Dornack
Software Mentions: 4
Published: over 4 years ago

10.1038/s41598-017-17830-z

Altered Gut Microbiota Profiles in Sows and Neonatal Piglets Associated with Porcine Epidemic Diarrhea Virus Infection
Cited by: 33
Author(s): Deping Song, Qi Peng, Yanjun Chen, Xinrong Zhou, Fanfan Zhang, Anqi Li, Deng-Shing Huang, Qiong Wu, Yongsheng Yu, Hua He, Leyi Wang, Yuxin Tang
Software Mentions: 3
Published: about 7 years ago

10.1371/journal.pone.0099949

Structure, Composition and Metagenomic Profile of Soil Microbiomes Associated to Agricultural Land Use and Tillage Systems in Argentine Pampas
Cited by: 154
Author(s): Belén Carbonetto, Nicolás Rascovan, Roberto Álvarez, Alejandro Mentaberry, Martı́n Vázquez
Software Mentions: 3
Published: over 10 years ago

10.1371/journal.pone.0130035

Bioinformatic Amplicon Read Processing Strategies Strongly Affect Eukaryotic Diversity and the Taxonomic Composition of Communities
Cited by: 54
Author(s): Markus Majaneva, Kirsi Hyytiäinen, Sirkka-Liisa Varvio, Satoshi Nagai, Jaanika Blomster
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0214533

Fluorescent nucleic acid probe in droplets for bacterial sorting (FNAP-sort) as a high-throughput screening method for environmental bacteria with various growth rates
Cited by: 13
Author(s): Yuichi Ota, Kanako Saito, Taeko Takagi, Satoko Matsukura, Masamune Morita, Satoshi Tsuneda, Naohiro Noda
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0141152

Microbial Contaminants of Cord Blood Units Identified by 16S rRNA Sequencing and by API Test System, and Antibiotic Sensitivity Profiling
Cited by: 6
Author(s): Luís França, Catarina Simões, Marco Taborda, Catarina Diogo, Milton S. da Costa
Software Mentions: 2
Published: about 9 years ago

10.1186/s12866-020-01779-7

High-throughput sequencing study of the effect of transabdominal hysterectomy on intestinal flora in patients with uterine fibroids
Cited by: 14
Author(s): Wantong Wang, Yibing Li, Qi‐Jun Wu, Xin Pan, Xiaozhou He, Xiaoxin Ma
Software Mentions: 2
Published: over 4 years ago

10.3389/fmicb.2016.00051

Human Microbiota of the Argentine Population- A Pilot Study
Cited by: 12
Author(s): Belén Carbonetto, Mónica Fabbro, Mariela Sciara, Analía Seravalle, Guadalupe Méjico, Santiago Revale, Soledad Estrella, Bianca Brun, Marcelo Fay, Fabián Fay, Martı́n Vázquez
Software Mentions: 2
Published: almost 9 years ago

10.3389/fmicb.2019.00758

Marine Deep Biosphere Microbial Communities Assemble in Near-Surface Sediments in Aarhus Bay
Cited by: 48
Author(s): Caitlin Petro, Birthe Zäncker, Piotr Starnawski, Lara Jochum, Timothy G. Ferdelman, Bo Barker Jørgensen, Hans Røy, Kasper Urup Kjeldsen, Andreas Schramm
Software Mentions: 2
Published: over 5 years ago

10.7717/peerj.243

PhyloSift: phylogenetic analysis of genomes and metagenomes
Cited by: 541
Author(s): Aaron E. Darling, Guillaume Jospin, Eric Lowe, F. A. Matsen, Holly M. Bik, Jonathan A. Eisen
Software Mentions: 2
Published: almost 11 years ago

10.1186/1471-2229-13-180

Genome-wide identification of Thellungiella salsuginea microRNAs with putative roles in the salt stress response
Cited by: 61
Author(s): Quan Zhang, Chuanzhi Zhao, Ming Li, Wei Sun, Yan Liu, Han Xia, Mingxuan Sun, Aiqin Li, Changsheng Li, Shuzhen Zhao, Lei Hou, Jean-François Picimbon, Xingjun Wang, Yanxiu Zhao
Software Mentions: 1
Published: about 11 years ago