Literature DB >> 29967506

Bioconda: sustainable and comprehensive software distribution for the life sciences.

Björn Grüning1, Ryan Dale2, Andreas Sjödin3,4, Brad A Chapman5, Jillian Rowe6, Christopher H Tomkins-Tinch7,8, Renan Valieris9, Johannes Köster10,11.   

Abstract

Mesh：

Year:  2018        PMID： 29967506     DOI： 10.1038/s41592-018-0046-7

Source DB:  PubMed          Journal:  Nat Methods        ISSN： 1548-7091            Impact factor:   28.547


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  235 in total

1.  WisecondorX: improved copy number detection for routine shallow whole-genome sequencing.

Authors:  Lennart Raman; Annelies Dheedene; Matthias De Smet; Jo Van Dorpe; Björn Menten
Journal:  Nucleic Acids Res       Date:  2019-02-28       Impact factor: 16.971

2.  metaQuantome: An Integrated, Quantitative Metaproteomics Approach Reveals Connections Between Taxonomy and Protein Function in Complex Microbiomes.

Authors:  Caleb W Easterly; Ray Sajulga; Subina Mehta; James Johnson; Praveen Kumar; Shane Hubler; Bart Mesuere; Joel Rudney; Timothy J Griffin; Pratik D Jagtap
Journal:  Mol Cell Proteomics       Date:  2019-06-24       Impact factor: 5.911

3.  Cooler: scalable storage for Hi-C data and other genomically labeled arrays.

Authors:  Nezar Abdennur; Leonid A Mirny
Journal:  Bioinformatics       Date:  2020-01-01       Impact factor: 6.937

4.  PathwayMatcher: proteoform-centric network construction enables fine-granularity multiomics pathway mapping.

Authors:  Luis Francisco Hernández Sánchez; Bram Burger; Carlos Horro; Antonio Fabregat; Stefan Johansson; Pål Rasmus Njølstad; Harald Barsnes; Henning Hermjakob; Marc Vaudel
Journal:  Gigascience       Date:  2019-08-01       Impact factor: 6.524

5.  A Bayesian model for single cell transcript expression analysis on MERFISH data.

Authors:  Johannes Köster; Myles Brown; X Shirley Liu
Journal:  Bioinformatics       Date:  2019-03-15       Impact factor: 6.937

6.  High-throughput cultivation and identification of bacteria from the plant root microbiota.

Authors:  Jingying Zhang; Yong-Xin Liu; Xiaoxuan Guo; Yuan Qin; Ruben Garrido-Oter; Paul Schulze-Lefert; Yang Bai
Journal:  Nat Protoc       Date:  2021-01-13       Impact factor: 13.491

7.  Comparative Genomics, from the Annotated Genome to Valuable Biological Information: A Case Study.

Authors:  Sabina Zoledowska; Agata Motyka-Pomagruk; Agnieszka Misztak; Ewa Lojkowska
Journal:  Methods Mol Biol       Date:  2021

8.  Cenote-Taker 2 democratizes virus discovery and sequence annotation.

Authors:  Michael J Tisza; Anna K Belford; Guillermo Domínguez-Huerta; Benjamin Bolduc; Christopher B Buck
Journal:  Virus Evol       Date:  2020-12-30

9.  Unifying package managers, workflow engines, and containers: Computational reproducibility with BioNix.

Authors:  Justin Bedő; Leon Di Stefano; Anthony T Papenfuss
Journal:  Gigascience       Date:  2020-11-18       Impact factor: 6.524

10.  Bionitio: demonstrating and facilitating best practices for bioinformatics command-line software.

Authors:  Peter Georgeson; Anna Syme; Clare Sloggett; Jessica Chung; Harriet Dashnow; Michael Milton; Andrew Lonsdale; David Powell; Torsten Seemann; Bernard Pope
Journal:  Gigascience       Date:  2019-09-01       Impact factor: 6.524
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